From 59cd82cc8d166af2506488de40cfc1b4ef070b34 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Mon, 10 Oct 2022 20:55:36 -0700 Subject: [PATCH 01/46] dgidb: agonist and agonist-rev operations using simplified predicate and added qualifiers section --- dgidb/openapi.yml | 21 +++++++++++++++++---- 1 file changed, 17 insertions(+), 4 deletions(-) diff --git a/dgidb/openapi.yml b/dgidb/openapi.yml index be95da44..395066f2 100644 --- a/dgidb/openapi.yml +++ b/dgidb/openapi.yml @@ -573,8 +573,15 @@ components: outputs: - id: NCBIGene semantic: Gene - ## for biolink 2.2.8, DGIdb:agonist maps to this predicate - predicate: increases_activity_of + ## for biolink 2.2.8, DGIdb:agonist maps to increases_activity_of + predicate: affects + ## nesting allows this main key to stay the same even with future changes + qualifiers: + ## key is the "qualifier_type_id", value is the "qualifier_value" in the TRAPI Edge.qualifiers spec + qualified_predicate: causes + object_aspect_qualifier: activity + object_direction_qualifier: increased + causal_mechanism_qualifier: agonism ## extra since DGIdb labels these as "agonist" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -605,8 +612,14 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:agonist maps to the inverse of this predicate - predicate: activity_increased_by + ## for biolink 2.2.8, DGIdb:agonist maps to the inverse of increases_activity_of + predicate: affected_by + qualifiers: + ## odd because of the not-canonical direction + qualified_predicate: causes + subject_aspect_qualifier: activity + subject_direction_qualifier: increased + causal_mechanism_qualifier: agonism ## extra since DGIdb labels these as "agonist" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" From 98f22c7c3f3efb4f36a7263776706d176f05e8d9 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Mon, 10 Oct 2022 22:03:23 -0700 Subject: [PATCH 02/46] dgidb: add qualifier refactoring to some operations allosteric_modulator, antagonist, blocker, inhibitor, inverse_agonist, modulator, partial_agonist, positive_modulator (and commented-out ones like inducer, inhibitory_allosteric_modulator, negative_modulator, suppressor) and their reverse operations --- dgidb/openapi.yml | 217 +++++++++++++++++++++++++++++++++++----------- 1 file changed, 164 insertions(+), 53 deletions(-) diff --git a/dgidb/openapi.yml b/dgidb/openapi.yml index 395066f2..a1c9de17 100644 --- a/dgidb/openapi.yml +++ b/dgidb/openapi.yml @@ -615,8 +615,7 @@ components: ## for biolink 2.2.8, DGIdb:agonist maps to the inverse of increases_activity_of predicate: affected_by qualifiers: - ## odd because of the not-canonical direction - qualified_predicate: causes + qualified_predicate: causes ## odd because of the not-canonical direction subject_aspect_qualifier: activity subject_direction_qualifier: increased causal_mechanism_qualifier: agonism ## extra since DGIdb labels these as "agonist" @@ -649,8 +648,11 @@ components: outputs: - id: NCBIGene semantic: Gene - ## for biolink 2.2.8, DGIdb:allosteric_modulator maps to this predicate - predicate: affects_activity_of + ## for biolink 2.2.8, DGIdb:allosteric_modulator maps to affects_activity_of + predicate: affects + qualifiers: + object_aspect_qualifier: activity + ## no causal_mechanism_qualifier for "allosteric modulator" (not negative or positive) source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -678,8 +680,11 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:allosteric_modulator maps to the inverse of this predicate - predicate: activity_affected_by + ## for biolink 2.2.8, DGIdb:allosteric_modulator maps to the inverse of affects_activity_of + predicate: affected_by + qualifiers: + subject_aspect_qualifier: activity + ## no causal_mechanism_qualifier for "allosteric modulator" (not negative or positive) source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -709,11 +714,16 @@ components: outputs: - id: NCBIGene semantic: Gene - ## for biolink 2.2.8, DGIdb:antagonist maps to this predicate - predicate: decreases_activity_of - ## CX: confusion over whether to use a "negatively_regulates" (what is being done / the process) vs + ## for biolink 2.2.8, DGIdb:antagonist maps to decreases_activity_of + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity + object_direction_qualifier: decreased + causal_mechanism_qualifier: antagonism ## extra since DGIdb labels these as "antagonist" + ## CX: confusion over whether to use a "negatively regulates" (what is being done / the process) vs ## "decreases activity of" (the effect) - ## - def https://dgidb.org/interaction_types and https://en.wikipedia.org/wiki/Receptor_antagonist: + ## - def https://dgidb.org/interaction_types and https://en.wikipedia.org/wiki/Receptor_antagonist ## antagonists do bind to the protein ## They often "don't induce the protein to do a thing". ## Instead they block the agonist or signal / dampen the response to the agonist or signal... @@ -747,8 +757,13 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:antagonist maps to the inverse of this predicate - predicate: activity_decreased_by + ## for biolink 2.2.8, DGIdb:antagonist maps to the inverse of decreases_activity_of + predicate: affected_by + qualifiers: + qualified_predicate: causes ## odd because of the not-canonical direction + subject_aspect_qualifier: activity + subject_direction_qualifier: decreased + causal_mechanism_qualifier: antagonism ## extra since DGIdb labels these as "antagonist" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -900,9 +915,14 @@ components: - id: NCBIGene semantic: Gene ## CX: has the same issue as "antagonist" - ## - def https://dgidb.org/interaction_types and https://en.wikipedia.org/wiki/Receptor_antagonist: - ## for biolink 2.2.8, DGIdb:blocker maps to this predicate - predicate: decreases_activity_of + ## - def https://dgidb.org/interaction_types and https://en.wikipedia.org/wiki/Receptor_antagonist + ## for biolink 2.2.8, DGIdb:blocker maps to decreases_activity_of + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity + object_direction_qualifier: decreased + causal_mechanism_qualifier: inhibition ## not a direct mapping? source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -933,8 +953,13 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:blocker maps to the inverse of this predicate - predicate: activity_decreased_by + ## for biolink 2.2.8, DGIdb:blocker maps to the inverse of decreases_activity_of + predicate: affected_by + qualifiers: + qualified_predicate: causes ## odd because of the not-canonical direction + subject_aspect_qualifier: activity + subject_direction_qualifier: decreased + causal_mechanism_qualifier: inhibition ## not a direct mapping? source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -965,8 +990,13 @@ components: # outputs: # - id: NCBIGene # semantic: Gene - # ## for biolink 2.2.8, DGIdb:inducer maps to this predicate - # predicate: increases_activity_of + # ## for biolink 2.2.8, DGIdb:inducer maps to increases_activity_of + # predicate: affects + # qualifiers: + # qualified_predicate: causes + # object_aspect_qualifier: activity + # object_direction_qualifier: increased + # causal_mechanism_qualifier: inducer ## extra since DGIdb labels these as "inducer" # source: "infores:dgidb" # response_mapping: # "$ref": "#/components/x-bte-response-mapping/forward" @@ -994,8 +1024,13 @@ components: # outputs: # - id: "CHEMBL.COMPOUND" # semantic: SmallMolecule - # ## for biolink 2.2.8, DGIdb:inducer maps to the inverse of this predicate - # predicate: activity_increased_by + # ## for biolink 2.2.8, DGIdb:inducer maps to the inverse of increases_activity_of + # predicate: affected_by + # qualifiers: + # qualified_predicate: causes ## odd because of the not-canonical direction + # subject_aspect_qualifier: activity + # subject_direction_qualifier: increased + # causal_mechanism_qualifier: inducer ## extra since DGIdb labels these as "inducer" # source: "infores:dgidb" # response_mapping: # "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1025,8 +1060,13 @@ components: outputs: - id: NCBIGene semantic: Gene - ## for biolink 2.2.8, DGIdb:inhibitor maps to this predicate - predicate: decreases_activity_of + ## for biolink 2.2.8, DGIdb:inhibitor maps to decreases_activity_of + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity + object_direction_qualifier: decreased + causal_mechanism_qualifier: inhibition ## extra since DGIdb labels these as "inhibitor" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -1054,8 +1094,13 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:inhibitor maps to the inverse of this predicate - predicate: activity_decreased_by + ## for biolink 2.2.8, DGIdb:inhibitor maps to the inverse of decreases_activity_of + predicate: affected_by + qualifiers: + qualified_predicate: causes ## odd because of the not-canonical direction + subject_aspect_qualifier: activity + subject_direction_qualifier: decreased + causal_mechanism_qualifier: inhibition ## extra since DGIdb labels these as "inhibitor" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1086,8 +1131,13 @@ components: # outputs: # - id: NCBIGene # semantic: Gene - # ## for biolink 2.2.8, DGIdb:inhibitory_allosteric_modulator maps to this predicate - # predicate: decreases_activity_of + # ## for biolink 2.2.8, DGIdb:inhibitory_allosteric_modulator maps to decreases_activity_of + # predicate: affects + # qualifiers: + # qualified_predicate: causes + # object_aspect_qualifier: activity + # object_direction_qualifier: decreased + # causal_mechanism_qualifier: "negative allosteric modulation" ## extra # source: "infores:dgidb" # response_mapping: # "$ref": "#/components/x-bte-response-mapping/forward" @@ -1115,8 +1165,13 @@ components: # outputs: # - id: "CHEMBL.COMPOUND" # semantic: SmallMolecule - # ## for biolink 2.2.8, DGIdb:inhibitory_allosteric_modulator maps to the inverse of this predicate - # predicate: activity_decreased_by + # ## for biolink 2.2.8, DGIdb:inhibitory_allosteric_modulator maps to the inverse of decreases_activity_of + # predicate: affected_by + # qualifiers: + # qualified_predicate: causes ## odd because of the not-canonical direction + # subject_aspect_qualifier: activity + # subject_direction_qualifier: decreased + # causal_mechanism_qualifier: "negative allosteric modulation" ## extra # source: "infores:dgidb" # response_mapping: # "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1146,8 +1201,13 @@ components: outputs: - id: NCBIGene semantic: Gene - ## for biolink 2.2.8, DGIdb:inverse_agonist maps to this predicate - predicate: decreases_activity_of + ## for biolink 2.2.8, DGIdb:inverse_agonist maps to decreases_activity_of + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity + object_direction_qualifier: decreased + causal_mechanism_qualifier: "inverse agonism" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -1175,8 +1235,13 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:inverse_agonist maps to the inverse of this predicate - predicate: activity_decreased_by + ## for biolink 2.2.8, DGIdb:inverse_agonist maps to the inverse of decreases_activity_of + predicate: affected_by + qualifiers: + qualified_predicate: causes ## odd because of the not-canonical direction + subject_aspect_qualifier: activity + subject_direction_qualifier: decreased + causal_mechanism_qualifier: "inverse agonism" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1207,8 +1272,11 @@ components: - id: NCBIGene semantic: Gene ## could also use "entity regulates entity"? see def: https://dgidb.org/interaction_types - ## for biolink 2.2.8, DGIdb:modulator maps to this predicate - predicate: affects_activity_of + ## for biolink 2.2.8, DGIdb:modulator maps to affects_activity_of + predicate: affects + qualifiers: + object_aspect_qualifier: activity + ## no causal_mechanism_qualifier for "modulator" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -1236,8 +1304,11 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:modulator maps to the inverse of this predicate - predicate: activity_affected_by + ## for biolink 2.2.8, DGIdb:modulator maps to the inverse of affects_activity_of + predicate: affected_by + qualifiers: + subject_aspect_qualifier: activity + ## no causal_mechanism_qualifier for "modulator" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1268,8 +1339,13 @@ components: # outputs: # - id: NCBIGene # semantic: Gene - # ## for biolink 2.2.8, DGIdb:negative_modulator maps to this predicate - # predicate: decreases_activity_of + # ## for biolink 2.2.8, DGIdb:negative_modulator maps to decreases_activity_of + # predicate: affects + # qualifiers: + # qualified_predicate: causes + # object_aspect_qualifier: activity + # object_direction_qualifier: decreased + # ## no causal_mechanism_qualifier for "negative modulator" # source: "infores:dgidb" # response_mapping: # "$ref": "#/components/x-bte-response-mapping/forward" @@ -1297,8 +1373,13 @@ components: # outputs: # - id: "CHEMBL.COMPOUND" # semantic: SmallMolecule - # ## for biolink 2.2.8, DGIdb:negative_modulator maps to the inverse of this predicate - # predicate: activity_decreased_by + # ## for biolink 2.2.8, DGIdb:negative_modulator maps to the inverse of decreases_activity_of + # predicate: affected_by + # qualifiers: + # qualified_predicate: causes ## odd because of the not-canonical direction + # subject_aspect_qualifier: activity + # subject_direction_qualifier: decreased + # ## no causal_mechanism_qualifier for "negative modulator" # source: "infores:dgidb" # response_mapping: # "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1389,8 +1470,13 @@ components: outputs: - id: NCBIGene semantic: Gene - ## for biolink 2.2.8, DGIdb:partial_agonist maps to this predicate - predicate: increases_activity_of + ## for biolink 2.2.8, DGIdb:partial_agonist maps to increases_activity_of + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity + object_direction_qualifier: increased + ## no causal_mechanism_qualifier for "partial agonism". could use agonism? source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -1418,8 +1504,13 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:partial_agonist maps to the inverse of this predicate - predicate: activity_increased_by + ## for biolink 2.2.8, DGIdb:partial_agonist maps to the inverse of increases_activity_of + predicate: affected_by + qualifiers: + qualified_predicate: causes ## odd because of the not-canonical direction + subject_aspect_qualifier: activity + subject_direction_qualifier: increased + ## no causal_mechanism_qualifier for "partial agonism". could use agonism? source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1449,8 +1540,13 @@ components: outputs: - id: NCBIGene semantic: Gene - ## biolink 2.2.8: using mapping to GAMMA / CHEMBL.MECHANISM positive_modulator term - predicate: increases_activity_of + ## biolink 2.2.8: using mapping to GAMMA / CHEMBL.MECHANISM positive_modulator term. using increases_activity_of + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity + object_direction_qualifier: increased + ## no causal_mechanism_qualifier for "positive modulator" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -1478,8 +1574,13 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## biolink 2.2.8: using inverse of mapping to GAMMA / CHEMBL.MECHANISM positive_modulator term - predicate: activity_increased_by + ## biolink 2.2.8: using inverse of mapping to GAMMA / CHEMBL.MECHANISM positive_modulator term (activity_increased_by) + predicate: affected_by + qualifiers: + qualified_predicate: causes ## odd because of the not-canonical direction + subject_aspect_qualifier: activity + subject_direction_qualifier: increased + ## no causal_mechanism_qualifier for "positive modulator" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1510,8 +1611,13 @@ components: # outputs: # - id: NCBIGene # semantic: Gene - # ## biolink 2.2.8: using mapping for GAMMA:suppressor - # predicate: decreases_activity_of + # ## biolink 2.2.8: using mapping for GAMMA:suppressor, so using decreases_activity_of + # predicate: affects + # qualifiers: + # qualified_predicate: causes + # object_aspect_qualifier: activity + # object_direction_qualifier: decreased + # ## no causal_mechanism_qualifier for "suppressor" # source: "infores:dgidb" # response_mapping: # "$ref": "#/components/x-bte-response-mapping/forward" @@ -1539,8 +1645,13 @@ components: # outputs: # - id: "CHEMBL.COMPOUND" # semantic: SmallMolecule - # ## biolink 2.2.8: using inverse of mapping for GAMMA:suppressor - # predicate: activity_decreased_by + # ## biolink 2.2.8: using inverse of mapping for GAMMA:suppressor (so using activity_decreased_by) + # predicate: affected_by + # qualifiers: + # qualified_predicate: causes ## odd because of the not-canonical direction + # subject_aspect_qualifier: activity + # subject_direction_qualifier: decreased + # ## no causal_mechanism_qualifier for "suppressor" # source: "infores:dgidb" # response_mapping: # "$ref": "#/components/x-bte-response-mapping/reverse" From 56e857a5f7b1b9e63c6e2f323345ef08cdc32a68 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Wed, 12 Oct 2022 22:31:28 -0700 Subject: [PATCH 03/46] dgidb: for non-canonical directions, changing qualified_predicate to caused_by not in biolink model 3.0.2, but might be in a later release --- dgidb/openapi.yml | 22 +++++++++++----------- 1 file changed, 11 insertions(+), 11 deletions(-) diff --git a/dgidb/openapi.yml b/dgidb/openapi.yml index a1c9de17..4f58dbbe 100644 --- a/dgidb/openapi.yml +++ b/dgidb/openapi.yml @@ -615,7 +615,7 @@ components: ## for biolink 2.2.8, DGIdb:agonist maps to the inverse of increases_activity_of predicate: affected_by qualifiers: - qualified_predicate: causes ## odd because of the not-canonical direction + qualified_predicate: caused_by subject_aspect_qualifier: activity subject_direction_qualifier: increased causal_mechanism_qualifier: agonism ## extra since DGIdb labels these as "agonist" @@ -760,7 +760,7 @@ components: ## for biolink 2.2.8, DGIdb:antagonist maps to the inverse of decreases_activity_of predicate: affected_by qualifiers: - qualified_predicate: causes ## odd because of the not-canonical direction + qualified_predicate: caused_by subject_aspect_qualifier: activity subject_direction_qualifier: decreased causal_mechanism_qualifier: antagonism ## extra since DGIdb labels these as "antagonist" @@ -956,7 +956,7 @@ components: ## for biolink 2.2.8, DGIdb:blocker maps to the inverse of decreases_activity_of predicate: affected_by qualifiers: - qualified_predicate: causes ## odd because of the not-canonical direction + qualified_predicate: caused_by subject_aspect_qualifier: activity subject_direction_qualifier: decreased causal_mechanism_qualifier: inhibition ## not a direct mapping? @@ -1027,7 +1027,7 @@ components: # ## for biolink 2.2.8, DGIdb:inducer maps to the inverse of increases_activity_of # predicate: affected_by # qualifiers: - # qualified_predicate: causes ## odd because of the not-canonical direction + # qualified_predicate: caused_by # subject_aspect_qualifier: activity # subject_direction_qualifier: increased # causal_mechanism_qualifier: inducer ## extra since DGIdb labels these as "inducer" @@ -1097,7 +1097,7 @@ components: ## for biolink 2.2.8, DGIdb:inhibitor maps to the inverse of decreases_activity_of predicate: affected_by qualifiers: - qualified_predicate: causes ## odd because of the not-canonical direction + qualified_predicate: caused_by subject_aspect_qualifier: activity subject_direction_qualifier: decreased causal_mechanism_qualifier: inhibition ## extra since DGIdb labels these as "inhibitor" @@ -1168,7 +1168,7 @@ components: # ## for biolink 2.2.8, DGIdb:inhibitory_allosteric_modulator maps to the inverse of decreases_activity_of # predicate: affected_by # qualifiers: - # qualified_predicate: causes ## odd because of the not-canonical direction + # qualified_predicate: caused_by # subject_aspect_qualifier: activity # subject_direction_qualifier: decreased # causal_mechanism_qualifier: "negative allosteric modulation" ## extra @@ -1238,7 +1238,7 @@ components: ## for biolink 2.2.8, DGIdb:inverse_agonist maps to the inverse of decreases_activity_of predicate: affected_by qualifiers: - qualified_predicate: causes ## odd because of the not-canonical direction + qualified_predicate: caused_by subject_aspect_qualifier: activity subject_direction_qualifier: decreased causal_mechanism_qualifier: "inverse agonism" @@ -1376,7 +1376,7 @@ components: # ## for biolink 2.2.8, DGIdb:negative_modulator maps to the inverse of decreases_activity_of # predicate: affected_by # qualifiers: - # qualified_predicate: causes ## odd because of the not-canonical direction + # qualified_predicate: caused_by # subject_aspect_qualifier: activity # subject_direction_qualifier: decreased # ## no causal_mechanism_qualifier for "negative modulator" @@ -1507,7 +1507,7 @@ components: ## for biolink 2.2.8, DGIdb:partial_agonist maps to the inverse of increases_activity_of predicate: affected_by qualifiers: - qualified_predicate: causes ## odd because of the not-canonical direction + qualified_predicate: caused_by subject_aspect_qualifier: activity subject_direction_qualifier: increased ## no causal_mechanism_qualifier for "partial agonism". could use agonism? @@ -1577,7 +1577,7 @@ components: ## biolink 2.2.8: using inverse of mapping to GAMMA / CHEMBL.MECHANISM positive_modulator term (activity_increased_by) predicate: affected_by qualifiers: - qualified_predicate: causes ## odd because of the not-canonical direction + qualified_predicate: caused_by subject_aspect_qualifier: activity subject_direction_qualifier: increased ## no causal_mechanism_qualifier for "positive modulator" @@ -1648,7 +1648,7 @@ components: # ## biolink 2.2.8: using inverse of mapping for GAMMA:suppressor (so using activity_decreased_by) # predicate: affected_by # qualifiers: - # qualified_predicate: causes ## odd because of the not-canonical direction + # qualified_predicate: caused_by # subject_aspect_qualifier: activity # subject_direction_qualifier: decreased # ## no causal_mechanism_qualifier for "suppressor" From b19b6ff6b21628055c19d7582243b528fae7c3b1 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Wed, 26 Oct 2022 17:18:19 -0700 Subject: [PATCH 04/46] dgidb: update 1 set of commented-out operations for decreases_expression_of --- dgidb/openapi.yml | 18 ++++++++++++++---- 1 file changed, 14 insertions(+), 4 deletions(-) diff --git a/dgidb/openapi.yml b/dgidb/openapi.yml index 4f58dbbe..e5245a47 100644 --- a/dgidb/openapi.yml +++ b/dgidb/openapi.yml @@ -854,8 +854,13 @@ components: # outputs: # - id: NCBIGene # semantic: Gene - # ## for biolink 2.2.8, DGIdb:antisense_oligonucleotide maps to this predicate - # predicate: decreases_expression_of + # ## for biolink 2.2.8, DGIdb:antisense_oligonucleotide maps to decreases_expression_of + # ## but dgidb definition is: translation from mRNA to protein is inhibited.. + # predicate: affects + # qualifiers: + # qualified_predicate: causes + # object_aspect_qualifier: synthesis + # object_direction_qualifier: decreased # source: "infores:dgidb" # response_mapping: # "$ref": "#/components/x-bte-response-mapping/forward" @@ -883,8 +888,13 @@ components: # outputs: # - id: "CHEMBL.COMPOUND" # semantic: SmallMolecule - # ## for biolink 2.2.8, DGIdb:antisense_oligonucleotide maps to the inverse of this predicate - # predicate: expression_decreased_by + # ## for biolink 2.2.8, DGIdb:antisense_oligonucleotide maps to the inverse of decreases_expression_of + # ## but dgidb definition is: translation from mRNA to protein is inhibited.. + # predicate: affected_by + # qualifiers: + # qualified_predicate: caused_by + # subject_aspect_qualifier: synthesis + # subject_direction_qualifier: decreased # source: "infores:dgidb" # response_mapping: # "$ref": "#/components/x-bte-response-mapping/reverse" From 06bd8ce15168c2295d0f48364c9c8bfb9fbd1ad9 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Wed, 26 Oct 2022 17:20:21 -0700 Subject: [PATCH 05/46] go bp: update process_regulates_process, process_positively_regulates_process, process_negatively_regulates_process predicates --- go_bp/smartapi.yaml | 76 +++++++++++++++++++++++++++++---------------- 1 file changed, 50 insertions(+), 26 deletions(-) diff --git a/go_bp/smartapi.yaml b/go_bp/smartapi.yaml index 0a5046a1..84002317 100644 --- a/go_bp/smartapi.yaml +++ b/go_bp/smartapi.yaml @@ -501,7 +501,12 @@ components: semantic: BiologicalProcess parameters: fields: negatively_regulates.go - predicate: process_negatively_regulates_process + ## biolink 3.0.3: this is a mixin. Is this an issue? + ## interpretation: X "regulates" Y's "downregulated" state + ## biolink 2.4.8: used process_negatively_regulates_process + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: "infores:go" response_mapping: $ref: '#/components/x-bte-response-mapping/negatively_regulates' @@ -509,27 +514,32 @@ components: # - qInput: "GO:0090272" ## negative regulation of fibroblast growth factor production # oneOutput: "GO:0090269" ## fibroblast growth factor production negatively_regulated_by: - - supportBatch: true - useTemplating: true - inputs: - - id: GO - semantic: BiologicalProcess - requestBody: - body: - q: "{{ queryInputs }}" - scopes: negatively_regulates.go - outputs: - - id: GO - semantic: BiologicalProcess - parameters: - fields: _id - predicate: process_negatively_regulated_by_process - source: "infores:go" - response_mapping: - $ref: '#/components/x-bte-response-mapping/negatively_regulated_by' - # testExamples: - # - qInput: "GO:0016126" ## sterol biosynthetic process - # oneOutput: "GO:0106119" ## negative regulation of sterol biosynthetic process + - supportBatch: true + useTemplating: true + inputs: + - id: GO + semantic: BiologicalProcess + requestBody: + body: + q: "{{ queryInputs }}" + scopes: negatively_regulates.go + outputs: + - id: GO + semantic: BiologicalProcess + parameters: + fields: _id + ## biolink 3.0.3: this is a mixin. Is this an issue? + ## interpretation: Y's "downregulated" state "regulated_by" X + ## biolink 2.4.8: used process_negatively_regulated_by_process + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated + source: "infores:go" + response_mapping: + $ref: '#/components/x-bte-response-mapping/negatively_regulated_by' + # testExamples: + # - qInput: "GO:0016126" ## sterol biosynthetic process + # oneOutput: "GO:0106119" ## negative regulation of sterol biosynthetic process positively_regulates: ## 2761 records https://biothings.ncats.io/go_bp/query?q=_exists_:positively_regulates - supportBatch: true @@ -546,7 +556,12 @@ components: semantic: BiologicalProcess parameters: fields: positively_regulates.go - predicate: process_positively_regulates_process + ## biolink 3.0.3: this is a mixin. Is this an issue? + ## interpretation: X "regulates" Y's "upregulated" state + ## biolink 2.4.8: used process_positively_regulates_process + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: "infores:go" response_mapping: $ref: '#/components/x-bte-response-mapping/positively_regulates' @@ -568,7 +583,12 @@ components: semantic: BiologicalProcess parameters: fields: _id - predicate: process_positively_regulated_by_process + ## biolink 3.0.3: this is a mixin. Is this an issue? + ## interpretation: Y's "upregulated" state "regulated_by" X + ## biolink 2.4.8: used process_positively_regulated_by_process + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: "infores:go" response_mapping: $ref: '#/components/x-bte-response-mapping/positively_regulated_by' @@ -591,7 +611,9 @@ components: semantic: BiologicalProcess parameters: fields: regulates.go - predicate: process_regulates_process + ## biolink 3.0.3: this is a mixin. Is this an issue? + ## biolink 2.4.8: used process_regulates_process + predicate: regulates source: "infores:go" response_mapping: $ref: '#/components/x-bte-response-mapping/regulates' @@ -613,7 +635,9 @@ components: semantic: BiologicalProcess parameters: fields: _id - predicate: process_regulated_by_process + ## biolink 3.0.3: this is a mixin. Is this an issue? + ## biolink 2.4.8: used process_regulated_by_process + predicate: regulated_by source: "infores:go" response_mapping: $ref: '#/components/x-bte-response-mapping/regulated_by' From 100dfff83e7ba999887a5feb8081581c4841e0e4 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Wed, 26 Oct 2022 20:02:19 -0700 Subject: [PATCH 06/46] dgidb / semmeddb: update entity_positively_regulat* predicates for qualifier-refactor --- dgidb/openapi.yml | 20 +- semmeddb/generated_operations.yaml | 1292 +++++++++++++++++++++------- semmeddb/smartapi.yaml | 1292 +++++++++++++++++++++------- 3 files changed, 1950 insertions(+), 654 deletions(-) diff --git a/dgidb/openapi.yml b/dgidb/openapi.yml index e5245a47..2f6db63f 100644 --- a/dgidb/openapi.yml +++ b/dgidb/openapi.yml @@ -509,10 +509,12 @@ components: outputs: - id: NCBIGene semantic: Gene - ## for biolink 2.2.8, DGIdb:activator and CHEMBL.MECHANISM:activator map to the mixin positively_regulates (under regulates) - ## vs GAMMA:activator maps to increases_activity_of (under affects) - ## CX decided to use the entity-entity version of positively_regulates, after reading some triples' linked pubmed papers - predicate: entity_positively_regulates_entity + ## biolink 3.0.3: this is a mixin. Is this an issue? + ## interpretation: X "regulates" Y's "upregulated" state + ## biolink 2.4.8: used entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -540,10 +542,12 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:activator and CHEMBL.MECHANISM:activator map to the mixin positively_regulates (under regulates) - ## vs GAMMA:activator maps to increases_activity_of (under affects) - ## CX decided to use the entity-entity version of positively_regulates, after reading some triples' linked pubmed papers - predicate: entity_positively_regulated_by_entity + ## biolink 3.0.3: this is a mixin. Is this an issue? + ## interpretation: Y's "upregulated" state "regulated_by" X + ## biolink 2.4.8: used entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" diff --git a/semmeddb/generated_operations.yaml b/semmeddb/generated_operations.yaml index 0ec5d2fd..8de2f39b 100644 --- a/semmeddb/generated_operations.yaml +++ b/semmeddb/generated_operations.yaml @@ -457,7 +457,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -479,7 +481,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -1491,7 +1495,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -1513,7 +1519,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -1535,7 +1543,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -1557,7 +1567,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -1997,7 +2009,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -2019,7 +2033,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -2217,7 +2233,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -2349,7 +2367,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -2371,7 +2391,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -3669,7 +3691,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -3691,7 +3715,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -4219,7 +4245,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -4241,7 +4269,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5297,7 +5327,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: GrossAnatomicalStructure - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -5319,7 +5351,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5341,7 +5375,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -5363,7 +5399,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5539,7 +5577,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -6067,7 +6107,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -6089,7 +6131,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -6265,7 +6309,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -6485,7 +6531,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -6815,7 +6863,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -7365,7 +7415,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -7387,7 +7439,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -7783,7 +7837,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: GrossAnatomicalStructure - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -7805,7 +7861,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -7827,7 +7885,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -7915,7 +7975,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -7937,7 +7999,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8113,7 +8177,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8135,7 +8201,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8157,7 +8225,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8179,7 +8249,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8333,7 +8405,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8729,7 +8803,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8993,7 +9069,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -9015,7 +9093,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Procedure - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -9433,7 +9513,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -9455,7 +9537,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -9697,7 +9781,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -10005,7 +10091,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -10027,7 +10115,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -10137,7 +10227,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11193,7 +11285,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -11391,7 +11485,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: CellularComponent - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -11413,7 +11509,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11589,7 +11687,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -12161,7 +12261,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12183,7 +12285,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -12403,7 +12507,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -12535,7 +12641,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: GrossAnatomicalStructure - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12557,7 +12665,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -12711,7 +12821,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12733,7 +12845,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12799,7 +12913,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12821,7 +12937,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -13195,7 +13313,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -13217,7 +13337,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -13635,7 +13757,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -13657,7 +13781,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -13789,7 +13915,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -13811,7 +13939,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14119,7 +14249,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -14141,7 +14273,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14559,7 +14693,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -14581,7 +14717,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14603,7 +14741,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14625,7 +14765,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14669,7 +14811,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14955,7 +15099,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15175,7 +15321,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15483,7 +15631,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15769,7 +15919,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16033,7 +16185,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -16187,7 +16341,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -16341,7 +16497,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16671,7 +16829,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: CellularComponent - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -16693,7 +16853,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16715,7 +16877,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17243,7 +17407,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17419,7 +17585,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -18101,7 +18269,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -18123,7 +18293,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -18321,7 +18493,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -18387,7 +18561,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -18541,7 +18717,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -19003,7 +19181,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19707,7 +19887,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: CellularComponent - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19729,7 +19911,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -19751,7 +19935,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19839,7 +20025,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19949,7 +20137,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -19993,7 +20183,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -20015,7 +20207,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -20103,7 +20297,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -20653,7 +20849,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -20719,7 +20917,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21269,7 +21469,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21401,7 +21603,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -21423,7 +21627,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21599,7 +21805,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21797,7 +22005,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21863,7 +22073,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21885,7 +22097,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22017,7 +22231,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22039,7 +22255,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22325,7 +22543,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22347,7 +22567,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22391,7 +22613,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22435,7 +22659,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22611,7 +22837,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22633,7 +22861,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22677,7 +22907,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22721,7 +22953,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22743,7 +22977,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22985,7 +23221,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -23227,7 +23465,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -23337,7 +23577,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -23777,7 +24019,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -23799,7 +24043,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24085,7 +24331,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24525,7 +24773,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24547,7 +24797,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24723,7 +24975,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24745,7 +24999,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24899,7 +25155,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24943,7 +25201,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24987,7 +25247,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25097,7 +25359,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25119,7 +25383,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25207,7 +25473,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25339,7 +25607,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25537,7 +25807,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25625,7 +25897,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25735,7 +26009,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25801,7 +26077,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25823,7 +26101,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26021,7 +26301,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26065,7 +26347,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26109,7 +26393,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -26461,7 +26747,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26615,7 +26903,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -26637,7 +26927,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26879,7 +27171,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27033,7 +27327,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27055,7 +27351,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27319,7 +27617,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27341,7 +27641,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27451,7 +27753,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27627,7 +27931,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27935,7 +28241,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27957,7 +28265,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28001,7 +28311,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28133,7 +28445,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28155,7 +28469,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28331,7 +28647,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28595,7 +28913,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28661,7 +28981,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28859,7 +29181,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29277,7 +29601,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29299,7 +29625,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29431,7 +29759,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29541,7 +29871,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29717,7 +30049,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29761,7 +30095,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29915,7 +30251,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29959,7 +30297,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30003,7 +30343,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -30113,7 +30455,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30289,7 +30633,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30355,7 +30701,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -30531,7 +30879,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30707,7 +31057,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30795,7 +31147,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30993,7 +31347,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31103,7 +31459,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -31719,7 +32077,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31851,7 +32211,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31961,7 +32323,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32093,7 +32457,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32357,7 +32723,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32467,7 +32835,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32511,7 +32881,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32533,7 +32905,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32665,7 +33039,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32951,7 +33327,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33391,7 +33769,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -33413,7 +33793,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33523,7 +33905,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33853,7 +34237,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33941,7 +34327,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34007,7 +34395,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34205,7 +34595,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -34227,7 +34619,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34293,7 +34687,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -34315,7 +34711,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34469,7 +34867,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -34733,7 +35133,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -35261,7 +35663,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -35811,7 +36215,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35965,7 +36371,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36031,7 +36439,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36053,7 +36463,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36207,7 +36619,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36273,7 +36687,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36295,7 +36711,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36361,7 +36779,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36383,7 +36803,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36757,7 +37179,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36779,7 +37203,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36889,7 +37315,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36911,7 +37339,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -37043,7 +37473,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37065,7 +37497,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -37087,7 +37521,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37109,7 +37545,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37263,7 +37701,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37285,7 +37725,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37417,7 +37859,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37461,7 +37905,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37769,7 +38215,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -37791,7 +38239,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -38121,7 +38571,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -38407,7 +38859,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -38671,7 +39125,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -38869,7 +39325,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39089,7 +39547,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39111,7 +39571,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39199,7 +39661,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39463,7 +39927,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39683,7 +40149,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39727,7 +40195,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39859,7 +40329,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39881,7 +40353,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40013,7 +40487,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40123,7 +40599,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40475,7 +40953,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -41201,7 +41681,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -41223,7 +41705,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41245,7 +41729,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41289,7 +41775,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41817,7 +42305,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -41839,7 +42329,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41927,7 +42419,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -42081,7 +42575,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -42257,7 +42753,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -42279,7 +42777,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42455,7 +42955,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42543,7 +43045,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42565,7 +43069,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42609,7 +43115,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42653,7 +43161,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43071,7 +43581,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -43093,7 +43605,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43159,7 +43673,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43379,7 +43895,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43401,7 +43919,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43599,7 +44119,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43643,7 +44165,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43951,7 +44475,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44017,7 +44543,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44281,7 +44809,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44523,7 +45053,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44633,7 +45165,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45425,7 +45959,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45887,7 +46423,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45975,7 +46513,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45997,7 +46537,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46239,7 +46781,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46305,7 +46849,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -46371,7 +46917,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -46393,7 +46941,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46503,7 +47053,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -46525,7 +47077,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46723,7 +47277,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -46921,7 +47477,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -47185,7 +47743,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47229,7 +47789,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47361,7 +47923,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -47427,7 +47991,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -47449,7 +48015,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47801,7 +48369,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47933,7 +48503,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Protein - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -47955,7 +48527,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48153,7 +48727,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48175,7 +48751,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48461,7 +49039,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -48593,7 +49173,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -48615,7 +49197,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48835,7 +49419,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48923,7 +49509,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -49121,7 +49709,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -49385,7 +49975,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49473,7 +50065,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Protein - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -49495,7 +50089,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49517,7 +50113,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49803,7 +50401,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49891,7 +50491,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50155,7 +50757,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50177,7 +50781,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50265,7 +50871,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50287,7 +50895,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Protein - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50397,7 +51007,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50639,7 +51251,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50661,7 +51275,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50771,7 +51387,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -51101,7 +51719,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -51123,7 +51743,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51387,7 +52009,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51651,7 +52275,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51915,7 +52541,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -52905,7 +53533,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53279,7 +53909,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53411,7 +54043,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53631,7 +54265,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54159,7 +54795,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54225,7 +54863,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -54379,7 +55019,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54423,7 +55065,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -54577,7 +55221,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' diff --git a/semmeddb/smartapi.yaml b/semmeddb/smartapi.yaml index 3b6e0acc..7d36df1e 100644 --- a/semmeddb/smartapi.yaml +++ b/semmeddb/smartapi.yaml @@ -3459,7 +3459,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -3481,7 +3483,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -4493,7 +4497,9 @@ components: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -4515,7 +4521,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -4537,7 +4545,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -4559,7 +4569,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -4999,7 +5011,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -5021,7 +5035,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5219,7 +5235,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5351,7 +5369,9 @@ components: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -5373,7 +5393,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -6671,7 +6693,9 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -6693,7 +6717,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -7221,7 +7247,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -7243,7 +7271,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8299,7 +8329,9 @@ components: outputs: - id: UMLS semantic: GrossAnatomicalStructure - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8321,7 +8353,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8343,7 +8377,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8365,7 +8401,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8541,7 +8579,9 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -9069,7 +9109,9 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -9091,7 +9133,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -9267,7 +9311,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -9487,7 +9533,9 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -9817,7 +9865,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -10367,7 +10417,9 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -10389,7 +10441,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -10785,7 +10839,9 @@ components: outputs: - id: UMLS semantic: GrossAnatomicalStructure - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -10807,7 +10863,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -10829,7 +10887,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -10917,7 +10977,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -10939,7 +11001,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11115,7 +11179,9 @@ components: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -11137,7 +11203,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11159,7 +11227,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11181,7 +11251,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -11335,7 +11407,9 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -11731,7 +11805,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11995,7 +12071,9 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12017,7 +12095,9 @@ components: outputs: - id: UMLS semantic: Procedure - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -12435,7 +12515,9 @@ components: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12457,7 +12539,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -12699,7 +12783,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -13007,7 +13093,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -13029,7 +13117,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -13139,7 +13229,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14195,7 +14287,9 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -14393,7 +14487,9 @@ components: outputs: - id: UMLS semantic: CellularComponent - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -14415,7 +14511,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14591,7 +14689,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15163,7 +15263,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15185,7 +15287,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15405,7 +15509,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15537,7 +15643,9 @@ components: outputs: - id: UMLS semantic: GrossAnatomicalStructure - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15559,7 +15667,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15713,7 +15823,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15735,7 +15847,9 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15801,7 +15915,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15823,7 +15939,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16197,7 +16315,9 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -16219,7 +16339,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16637,7 +16759,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -16659,7 +16783,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16791,7 +16917,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -16813,7 +16941,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17121,7 +17251,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -17143,7 +17275,9 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17561,7 +17695,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -17583,7 +17719,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17605,7 +17743,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17627,7 +17767,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17671,7 +17813,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17957,7 +18101,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -18177,7 +18323,9 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -18485,7 +18633,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -18771,7 +18921,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -19035,7 +19187,9 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19189,7 +19343,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19343,7 +19499,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -19673,7 +19831,9 @@ components: outputs: - id: UMLS semantic: CellularComponent - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19695,7 +19855,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -19717,7 +19879,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -20245,7 +20409,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -20421,7 +20587,9 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -21103,7 +21271,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21125,7 +21295,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -21323,7 +21495,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21389,7 +21563,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -21543,7 +21719,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22005,7 +22183,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22709,7 +22889,9 @@ components: outputs: - id: UMLS semantic: CellularComponent - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22731,7 +22913,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22753,7 +22937,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22841,7 +23027,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22951,7 +23139,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22995,7 +23185,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -23017,7 +23209,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -23105,7 +23299,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -23655,7 +23851,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -23721,7 +23919,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24271,7 +24471,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24403,7 +24605,9 @@ components: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24425,7 +24629,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24601,7 +24807,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24799,7 +25007,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24865,7 +25075,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24887,7 +25099,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25019,7 +25233,9 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25041,7 +25257,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25327,7 +25545,9 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25349,7 +25569,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25393,7 +25615,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25437,7 +25661,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25613,7 +25839,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25635,7 +25863,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25679,7 +25909,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25723,7 +25955,9 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25745,7 +25979,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25987,7 +26223,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26229,7 +26467,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -26339,7 +26579,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -26779,7 +27021,9 @@ components: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -26801,7 +27045,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27087,7 +27333,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27527,7 +27775,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27549,7 +27799,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27725,7 +27977,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27747,7 +28001,9 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27901,7 +28157,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27945,7 +28203,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27989,7 +28249,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28099,7 +28361,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28121,7 +28385,9 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28209,7 +28475,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28341,7 +28609,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28539,7 +28809,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28627,7 +28899,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28737,7 +29011,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28803,7 +29079,9 @@ components: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28825,7 +29103,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29023,7 +29303,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29067,7 +29349,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29111,7 +29395,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29463,7 +29749,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29617,7 +29905,9 @@ components: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29639,7 +29929,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29881,7 +30173,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30035,7 +30329,9 @@ components: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -30057,7 +30353,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30321,7 +30619,9 @@ components: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -30343,7 +30643,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30453,7 +30755,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30629,7 +30933,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30937,7 +31243,9 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -30959,7 +31267,9 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31003,7 +31313,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -31135,7 +31447,9 @@ components: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -31157,7 +31471,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31333,7 +31649,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -31597,7 +31915,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31663,7 +31983,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31861,7 +32183,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32279,7 +32603,9 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32301,7 +32627,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32433,7 +32761,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32543,7 +32873,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32719,7 +33051,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32763,7 +33097,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32917,7 +33253,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32961,7 +33299,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33005,7 +33345,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -33115,7 +33457,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33291,7 +33635,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33357,7 +33703,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -33533,7 +33881,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33709,7 +34059,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33797,7 +34149,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33995,7 +34349,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34105,7 +34461,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -34721,7 +35079,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34853,7 +35213,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34963,7 +35325,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35095,7 +35459,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35359,7 +35725,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -35469,7 +35837,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -35513,7 +35883,9 @@ components: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -35535,7 +35907,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35667,7 +36041,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35953,7 +36329,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36393,7 +36771,9 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36415,7 +36795,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36525,7 +36907,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36855,7 +37239,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36943,7 +37329,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37009,7 +37397,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37207,7 +37597,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -37229,7 +37621,9 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37295,7 +37689,9 @@ components: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -37317,7 +37713,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37471,7 +37869,9 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -37735,7 +38135,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -38263,7 +38665,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -38813,7 +39217,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -38967,7 +39373,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39033,7 +39441,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39055,7 +39465,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39209,7 +39621,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39275,7 +39689,9 @@ components: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39297,7 +39713,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39363,7 +39781,9 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39385,7 +39805,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39759,7 +40181,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39781,7 +40205,9 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39891,7 +40317,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39913,7 +40341,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -40045,7 +40475,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40067,7 +40499,9 @@ components: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -40089,7 +40523,9 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40111,7 +40547,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40265,7 +40703,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40287,7 +40727,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40419,7 +40861,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40463,7 +40907,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40771,7 +41217,9 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -40793,7 +41241,9 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41123,7 +41573,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -41409,7 +41861,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -41673,7 +42127,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -41871,7 +42327,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42091,7 +42549,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42113,7 +42573,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42201,7 +42663,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42465,7 +42929,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42685,7 +43151,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42729,7 +43197,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42861,7 +43331,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42883,7 +43355,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43015,7 +43489,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43125,7 +43601,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43477,7 +43955,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -44203,7 +44683,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -44225,7 +44707,9 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44247,7 +44731,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44291,7 +44777,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44819,7 +45307,9 @@ components: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -44841,7 +45331,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44929,7 +45421,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -45083,7 +45577,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -45259,7 +45755,9 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -45281,7 +45779,9 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45457,7 +45957,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45545,7 +46047,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45567,7 +46071,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45611,7 +46117,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45655,7 +46163,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46073,7 +46583,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -46095,7 +46607,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46161,7 +46675,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46381,7 +46897,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46403,7 +46921,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46601,7 +47121,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46645,7 +47167,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46953,7 +47477,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47019,7 +47545,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47283,7 +47811,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47525,7 +48055,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47635,7 +48167,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48427,7 +48961,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48889,7 +49425,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48977,7 +49515,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48999,7 +49539,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49241,7 +49783,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49307,7 +49851,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -49373,7 +49919,9 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -49395,7 +49943,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49505,7 +50055,9 @@ components: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -49527,7 +50079,9 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49725,7 +50279,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -49923,7 +50479,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50187,7 +50745,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50231,7 +50791,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50363,7 +50925,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50429,7 +50993,9 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50451,7 +51017,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50803,7 +51371,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50935,7 +51505,9 @@ components: outputs: - id: UMLS semantic: Protein - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50957,7 +51529,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51155,7 +51729,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51177,7 +51753,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51463,7 +52041,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -51595,7 +52175,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -51617,7 +52199,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51837,7 +52421,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51925,7 +52511,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -52123,7 +52711,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -52387,7 +52977,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -52475,7 +53067,9 @@ components: outputs: - id: UMLS semantic: Protein - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -52497,7 +53091,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -52519,7 +53115,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -52805,7 +53403,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -52893,7 +53493,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53157,7 +53759,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -53179,7 +53783,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53267,7 +53873,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -53289,7 +53897,9 @@ components: outputs: - id: UMLS semantic: Protein - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53399,7 +54009,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53641,7 +54253,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53663,7 +54277,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53773,7 +54389,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -54103,7 +54721,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -54125,7 +54745,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54389,7 +55011,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54653,7 +55277,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54917,7 +55543,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -55907,7 +56535,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -56281,7 +56911,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -56413,7 +57045,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -56633,7 +57267,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -57161,7 +57797,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -57227,7 +57865,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -57381,7 +58021,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -57425,7 +58067,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -57579,7 +58223,9 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' From 2864a608a3765d471ea7cf1afba1d3c585a98d2b Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Wed, 26 Oct 2022 20:02:51 -0700 Subject: [PATCH 07/46] text-mining targeted: update entity_positively_regulat* predicates for qualifier-refactor --- text_mining/smartapi.yaml | 42 +++++++++++++++++++++++++++++++++------ 1 file changed, 36 insertions(+), 6 deletions(-) diff --git a/text_mining/smartapi.yaml b/text_mining/smartapi.yaml index d2a29b56..66b6fe20 100644 --- a/text_mining/smartapi.yaml +++ b/text_mining/smartapi.yaml @@ -655,7 +655,12 @@ components: outputs: - id: UniProtKB semantic: Gene - predicate: entity_positively_regulates_entity + ## biolink 3.0.3: this is a mixin. Is this an issue? + ## interpretation: X "regulates" Y's "upregulated" state + ## biolink 2.4.8: used entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated response_mapping: "$ref": "#/components/x-bte-response-mapping/uniprotkb-object" ## Examples: @@ -682,7 +687,12 @@ components: outputs: - id: CHEBI semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + ## biolink 3.0.3: this is a mixin. Is this an issue? + ## interpretation: Y's "upregulated" state "regulated_by" X + ## biolink 2.4.8: used entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated response_mapping: "$ref": "#/components/x-bte-response-mapping/chebi-subject" ## Examples: @@ -761,7 +771,12 @@ components: outputs: - id: UniProtKB semantic: Gene - predicate: entity_positively_regulates_entity + ## biolink 3.0.3: this is a mixin. Is this an issue? + ## interpretation: X "regulates" Y's "upregulated" state + ## biolink 2.4.8: used entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated response_mapping: "$ref": "#/components/x-bte-response-mapping/uniprotkb-object" ## Examples: @@ -788,7 +803,12 @@ components: outputs: - id: DRUGBANK semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + ## biolink 3.0.3: this is a mixin. Is this an issue? + ## interpretation: Y's "upregulated" state "regulated_by" X + ## biolink 2.4.8: used entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated response_mapping: "$ref": "#/components/x-bte-response-mapping/drugbank-subject" ## Examples: @@ -867,7 +887,12 @@ components: outputs: - id: UniProtKB semantic: Gene - predicate: entity_positively_regulates_entity + ## biolink 3.0.3: this is a mixin. Is this an issue? + ## interpretation: X "regulates" Y's "upregulated" state + ## biolink 2.4.8: used entity_positively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: upregulated response_mapping: "$ref": "#/components/x-bte-response-mapping/uniprotkb-object" ## Examples: @@ -893,7 +918,12 @@ components: outputs: - id: UniProtKB semantic: Gene - predicate: entity_positively_regulated_by_entity + ## biolink 3.0.3: this is a mixin. Is this an issue? + ## interpretation: Y's "upregulated" state "regulated_by" X + ## biolink 2.4.8: used entity_positively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: upregulated response_mapping: "$ref": "#/components/x-bte-response-mapping/uniprotkb-subject" ## Examples: From fd34e03a6d3d07bba14967df39b5426f3fbd4bbb Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Wed, 26 Oct 2022 22:15:12 -0700 Subject: [PATCH 08/46] text-mining targeted: update entity_negatively_regulat* predicates for qualifier-refactor --- text_mining/smartapi.yaml | 42 +++++++++++++++++++++++++++++++++------ 1 file changed, 36 insertions(+), 6 deletions(-) diff --git a/text_mining/smartapi.yaml b/text_mining/smartapi.yaml index 66b6fe20..d993518b 100644 --- a/text_mining/smartapi.yaml +++ b/text_mining/smartapi.yaml @@ -718,7 +718,12 @@ components: outputs: - id: UniProtKB semantic: Gene - predicate: entity_negatively_regulates_entity + ## biolink 3.0.3: this is a mixin. Is this an issue? + ## interpretation: X "regulates" Y's "downregulated" state + ## biolink 2.4.8: used entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated response_mapping: "$ref": "#/components/x-bte-response-mapping/uniprotkb-object" ## Examples: @@ -745,7 +750,12 @@ components: outputs: - id: CHEBI semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + ## biolink 3.0.3: this is a mixin. Is this an issue? + ## interpretation: Y's "downregulated" state "regulated_by" X + ## biolink 2.4.8: used entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated response_mapping: "$ref": "#/components/x-bte-response-mapping/chebi-subject" ## Examples: @@ -834,7 +844,12 @@ components: outputs: - id: UniProtKB semantic: Gene - predicate: entity_negatively_regulates_entity + ## biolink 3.0.3: this is a mixin. Is this an issue? + ## interpretation: X "regulates" Y's "downregulated" state + ## biolink 2.4.8: used entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated response_mapping: "$ref": "#/components/x-bte-response-mapping/uniprotkb-object" ## Examples: @@ -861,7 +876,12 @@ components: outputs: - id: DRUGBANK semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + ## biolink 3.0.3: this is a mixin. Is this an issue? + ## interpretation: Y's "downregulated" state "regulated_by" X + ## biolink 2.4.8: used entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated response_mapping: "$ref": "#/components/x-bte-response-mapping/drugbank-subject" ## Examples: @@ -949,7 +969,12 @@ components: outputs: - id: UniProtKB semantic: Gene - predicate: entity_negatively_regulates_entity + ## biolink 3.0.3: this is a mixin. Is this an issue? + ## interpretation: X "regulates" Y's "downregulated" state + ## biolink 2.4.8: used entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated response_mapping: "$ref": "#/components/x-bte-response-mapping/uniprotkb-object" ## Examples: @@ -975,7 +1000,12 @@ components: outputs: - id: UniProtKB semantic: Gene - predicate: entity_negatively_regulated_by_entity + ## biolink 3.0.3: this is a mixin. Is this an issue? + ## interpretation: Y's "downregulated" state "regulated_by" X + ## biolink 2.4.8: used entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated response_mapping: "$ref": "#/components/x-bte-response-mapping/uniprotkb-subject" ## Examples: From f951fcdf6f146aa180907c0075498ef6fdf514c9 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Wed, 26 Oct 2022 22:26:36 -0700 Subject: [PATCH 09/46] semmeddb: update entity_negatively_regulat* predicates for qualifier-refactor --- semmeddb/generated_operations.yaml | 504 ++++++++++++++++++++++------- semmeddb/smartapi.yaml | 504 ++++++++++++++++++++++------- 2 files changed, 758 insertions(+), 250 deletions(-) diff --git a/semmeddb/generated_operations.yaml b/semmeddb/generated_operations.yaml index 8de2f39b..9cf85426 100644 --- a/semmeddb/generated_operations.yaml +++ b/semmeddb/generated_operations.yaml @@ -945,7 +945,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -967,7 +969,13 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated + + + + source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -1209,7 +1217,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -1231,7 +1241,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -2415,7 +2427,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -2437,7 +2451,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -3625,7 +3641,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -3739,7 +3757,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -3761,7 +3781,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5041,7 +5063,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5645,7 +5669,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -5667,7 +5693,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5931,7 +5959,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -5953,7 +5983,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -6155,7 +6187,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8715,7 +8749,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -9381,7 +9417,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -9403,7 +9441,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -9605,7 +9645,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -9627,7 +9669,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -9849,7 +9893,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -10977,7 +11023,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11463,7 +11511,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -13625,7 +13675,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -13647,7 +13699,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14385,7 +14439,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15455,7 +15511,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15477,7 +15535,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15609,7 +15669,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15787,7 +15849,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15987,7 +16051,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -16009,7 +16075,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16675,7 +16743,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -17609,7 +17679,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17961,7 +18033,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -19005,7 +19079,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19381,7 +19457,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19491,7 +19569,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19799,7 +19879,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -20563,7 +20645,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -20783,7 +20867,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -21051,7 +21137,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21425,7 +21513,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22029,7 +22119,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -23333,7 +23425,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -23355,7 +23449,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24265,7 +24361,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24487,7 +24585,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24509,7 +24609,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24707,7 +24809,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25045,7 +25149,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25067,7 +25173,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25179,7 +25287,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25315,7 +25425,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25675,7 +25787,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25763,7 +25877,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26125,7 +26241,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26461,7 +26579,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27665,7 +27785,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27687,7 +27809,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28803,7 +28927,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29159,7 +29285,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29693,7 +29821,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29715,7 +29845,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29983,7 +30115,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -30027,7 +30161,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30523,7 +30659,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32435,7 +32573,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32569,7 +32709,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32769,7 +32911,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33439,7 +33583,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -33461,7 +33607,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -33483,7 +33631,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33681,7 +33831,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34061,7 +34213,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -34643,7 +34797,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34935,7 +35091,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -34957,7 +35115,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35223,7 +35383,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35487,7 +35649,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36149,7 +36313,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36193,7 +36359,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36597,7 +36765,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37815,7 +37985,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -38193,7 +38365,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -38949,7 +39123,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39037,7 +39213,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39685,7 +39863,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39707,7 +39887,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40039,7 +40221,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -40061,7 +40245,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40645,7 +40831,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -41087,7 +41275,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -41109,7 +41299,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41153,7 +41345,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41285,7 +41479,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41461,7 +41657,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41659,7 +41857,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -42979,7 +43179,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -43001,7 +43203,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44299,7 +44503,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -44321,7 +44527,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Protein - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44409,7 +44617,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -44431,7 +44641,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45475,7 +45687,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Protein - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -45497,7 +45711,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45827,7 +46043,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45915,7 +46133,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -46071,7 +46291,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46491,7 +46713,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -46965,7 +47189,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -47655,7 +47881,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -47901,7 +48129,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48215,7 +48445,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48573,7 +48805,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -48841,7 +49075,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48863,7 +49099,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50849,7 +51087,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51899,7 +52139,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -52587,7 +52829,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Protein - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -52609,7 +52853,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53049,7 +53295,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53291,7 +53539,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54575,7 +54825,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -55575,7 +55827,9 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' diff --git a/semmeddb/smartapi.yaml b/semmeddb/smartapi.yaml index 7d36df1e..382c01eb 100644 --- a/semmeddb/smartapi.yaml +++ b/semmeddb/smartapi.yaml @@ -3947,7 +3947,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -3969,7 +3971,13 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated + + + + source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -4211,7 +4219,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -4233,7 +4243,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5417,7 +5429,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -5439,7 +5453,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -6627,7 +6643,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -6741,7 +6759,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -6763,7 +6783,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8043,7 +8065,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8647,7 +8671,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8669,7 +8695,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8933,7 +8961,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8955,7 +8985,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -9157,7 +9189,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -11717,7 +11751,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12383,7 +12419,9 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12405,7 +12443,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -12607,7 +12647,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12629,7 +12671,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -12851,7 +12895,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -13979,7 +14025,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14465,7 +14513,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16627,7 +16677,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16649,7 +16701,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17387,7 +17441,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -18457,7 +18513,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -18479,7 +18537,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -18611,7 +18671,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -18789,7 +18851,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -18989,7 +19053,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19011,7 +19077,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -19677,7 +19745,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -20611,7 +20681,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -20963,7 +21035,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22007,7 +22081,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22383,7 +22459,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22493,7 +22571,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22801,7 +22881,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -23565,7 +23647,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -23785,7 +23869,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24053,7 +24139,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24427,7 +24515,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25031,7 +25121,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -26335,7 +26427,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -26357,7 +26451,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27267,7 +27363,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27489,7 +27587,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27511,7 +27611,9 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27709,7 +27811,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28047,7 +28151,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28069,7 +28175,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28181,7 +28289,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28317,7 +28427,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28677,7 +28789,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28765,7 +28879,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29127,7 +29243,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29463,7 +29581,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30667,7 +30787,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30689,7 +30811,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -31805,7 +31929,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32161,7 +32287,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32695,7 +32823,9 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32717,7 +32847,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32985,7 +33117,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -33029,7 +33163,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33525,7 +33661,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35437,7 +35575,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -35571,7 +35711,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35771,7 +35913,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36441,7 +36585,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36463,7 +36609,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36485,7 +36633,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36683,7 +36833,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37063,7 +37215,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -37645,7 +37799,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37937,7 +38093,9 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -37959,7 +38117,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -38225,7 +38385,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -38489,7 +38651,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39151,7 +39315,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39195,7 +39361,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39599,7 +39767,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40817,7 +40987,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -41195,7 +41367,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41951,7 +42125,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42039,7 +42215,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -42687,7 +42865,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -42709,7 +42889,9 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43041,7 +43223,9 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -43063,7 +43247,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43647,7 +43833,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -44089,7 +44277,9 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -44111,7 +44301,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44155,7 +44347,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44287,7 +44481,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44463,7 +44659,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44661,7 +44859,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -45981,7 +46181,9 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -46003,7 +46205,9 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47301,7 +47505,9 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -47323,7 +47529,9 @@ components: outputs: - id: UMLS semantic: Protein - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47411,7 +47619,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -47433,7 +47643,9 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48477,7 +48689,9 @@ components: outputs: - id: UMLS semantic: Protein - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -48499,7 +48713,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48829,7 +49045,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48917,7 +49135,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -49073,7 +49293,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49493,7 +49715,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -49967,7 +50191,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50657,7 +50883,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50903,7 +51131,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51217,7 +51447,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51575,7 +51807,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -51843,7 +52077,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51865,7 +52101,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53851,7 +54089,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54901,7 +55141,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -55589,7 +55831,9 @@ components: outputs: - id: UMLS semantic: Protein - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -55611,7 +55855,9 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -56051,7 +56297,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -56293,7 +56541,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -57577,7 +57827,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: regulates + qualifiers: + object_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -58577,7 +58829,9 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: regulated_by + qualifiers: + subject_direction_qualifier: downregulated source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' From 923f5f88d406ef6f98b77a6a5daeb484c5aad09c Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Thu, 27 Oct 2022 12:19:51 -0700 Subject: [PATCH 10/46] dgidb: fix comments, update directly_interacts_with predicate for qualifier refactor --- dgidb/openapi.yml | 78 ++++++++++++++++++++++++++--------------------- 1 file changed, 44 insertions(+), 34 deletions(-) diff --git a/dgidb/openapi.yml b/dgidb/openapi.yml index 2f6db63f..846a7801 100644 --- a/dgidb/openapi.yml +++ b/dgidb/openapi.yml @@ -577,7 +577,7 @@ components: outputs: - id: NCBIGene semantic: Gene - ## for biolink 2.2.8, DGIdb:agonist maps to increases_activity_of + ## for biolink 2.4.8, DGIdb:agonist maps to increases_activity_of predicate: affects ## nesting allows this main key to stay the same even with future changes qualifiers: @@ -616,7 +616,7 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:agonist maps to the inverse of increases_activity_of + ## for biolink 2.4.8, DGIdb:agonist maps to the inverse of increases_activity_of predicate: affected_by qualifiers: qualified_predicate: caused_by @@ -652,7 +652,7 @@ components: outputs: - id: NCBIGene semantic: Gene - ## for biolink 2.2.8, DGIdb:allosteric_modulator maps to affects_activity_of + ## for biolink 2.4.8, DGIdb:allosteric_modulator maps to affects_activity_of predicate: affects qualifiers: object_aspect_qualifier: activity @@ -684,7 +684,7 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:allosteric_modulator maps to the inverse of affects_activity_of + ## for biolink 2.4.8, DGIdb:allosteric_modulator maps to the inverse of affects_activity_of predicate: affected_by qualifiers: subject_aspect_qualifier: activity @@ -718,7 +718,7 @@ components: outputs: - id: NCBIGene semantic: Gene - ## for biolink 2.2.8, DGIdb:antagonist maps to decreases_activity_of + ## for biolink 2.4.8, DGIdb:antagonist maps to decreases_activity_of predicate: affects qualifiers: qualified_predicate: causes @@ -761,7 +761,7 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:antagonist maps to the inverse of decreases_activity_of + ## for biolink 2.4.8, DGIdb:antagonist maps to the inverse of decreases_activity_of predicate: affected_by qualifiers: qualified_predicate: caused_by @@ -797,8 +797,13 @@ components: outputs: - id: NCBIGene semantic: Gene - ## biolink 2.2.8: using the mapping for GAMMA:antibody, rather than mapping for the relation (molecularly_interacts_with) - predicate: directly_interacts_with + ## for biolink 2.4.8, was using directly_interacts_with (mapping for GAMMA:antibody) + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity + object_direction_qualifier: decreased + causal_mechanism_qualifier: "antibody inhibition" ## extra since DGIdb labels these as "antibody" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -826,8 +831,13 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## biolink 2.2.8: using the mapping for GAMMA:antibody, rather than mapping for the relation (molecularly_interacts_with) - predicate: directly_interacts_with + ## for biolink 2.4.8, was using directly_interacts_with (mapping for GAMMA:antibody) + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity + subject_direction_qualifier: decreased + causal_mechanism_qualifier: "antibody inhibition" ## extra since DGIdb labels these as "antibody" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -858,7 +868,7 @@ components: # outputs: # - id: NCBIGene # semantic: Gene - # ## for biolink 2.2.8, DGIdb:antisense_oligonucleotide maps to decreases_expression_of + # ## for biolink 2.4.8, DGIdb:antisense_oligonucleotide maps to decreases_expression_of # ## but dgidb definition is: translation from mRNA to protein is inhibited.. # predicate: affects # qualifiers: @@ -892,7 +902,7 @@ components: # outputs: # - id: "CHEMBL.COMPOUND" # semantic: SmallMolecule - # ## for biolink 2.2.8, DGIdb:antisense_oligonucleotide maps to the inverse of decreases_expression_of + # ## for biolink 2.4.8, DGIdb:antisense_oligonucleotide maps to the inverse of decreases_expression_of # ## but dgidb definition is: translation from mRNA to protein is inhibited.. # predicate: affected_by # qualifiers: @@ -930,7 +940,7 @@ components: semantic: Gene ## CX: has the same issue as "antagonist" ## - def https://dgidb.org/interaction_types and https://en.wikipedia.org/wiki/Receptor_antagonist - ## for biolink 2.2.8, DGIdb:blocker maps to decreases_activity_of + ## for biolink 2.4.8, DGIdb:blocker maps to decreases_activity_of predicate: affects qualifiers: qualified_predicate: causes @@ -967,7 +977,7 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:blocker maps to the inverse of decreases_activity_of + ## for biolink 2.4.8, DGIdb:blocker maps to the inverse of decreases_activity_of predicate: affected_by qualifiers: qualified_predicate: caused_by @@ -1004,7 +1014,7 @@ components: # outputs: # - id: NCBIGene # semantic: Gene - # ## for biolink 2.2.8, DGIdb:inducer maps to increases_activity_of + # ## for biolink 2.4.8, DGIdb:inducer maps to increases_activity_of # predicate: affects # qualifiers: # qualified_predicate: causes @@ -1038,7 +1048,7 @@ components: # outputs: # - id: "CHEMBL.COMPOUND" # semantic: SmallMolecule - # ## for biolink 2.2.8, DGIdb:inducer maps to the inverse of increases_activity_of + # ## for biolink 2.4.8, DGIdb:inducer maps to the inverse of increases_activity_of # predicate: affected_by # qualifiers: # qualified_predicate: caused_by @@ -1074,7 +1084,7 @@ components: outputs: - id: NCBIGene semantic: Gene - ## for biolink 2.2.8, DGIdb:inhibitor maps to decreases_activity_of + ## for biolink 2.4.8, DGIdb:inhibitor maps to decreases_activity_of predicate: affects qualifiers: qualified_predicate: causes @@ -1108,7 +1118,7 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:inhibitor maps to the inverse of decreases_activity_of + ## for biolink 2.4.8, DGIdb:inhibitor maps to the inverse of decreases_activity_of predicate: affected_by qualifiers: qualified_predicate: caused_by @@ -1145,7 +1155,7 @@ components: # outputs: # - id: NCBIGene # semantic: Gene - # ## for biolink 2.2.8, DGIdb:inhibitory_allosteric_modulator maps to decreases_activity_of + # ## for biolink 2.4.8, DGIdb:inhibitory_allosteric_modulator maps to decreases_activity_of # predicate: affects # qualifiers: # qualified_predicate: causes @@ -1179,7 +1189,7 @@ components: # outputs: # - id: "CHEMBL.COMPOUND" # semantic: SmallMolecule - # ## for biolink 2.2.8, DGIdb:inhibitory_allosteric_modulator maps to the inverse of decreases_activity_of + # ## for biolink 2.4.8, DGIdb:inhibitory_allosteric_modulator maps to the inverse of decreases_activity_of # predicate: affected_by # qualifiers: # qualified_predicate: caused_by @@ -1215,7 +1225,7 @@ components: outputs: - id: NCBIGene semantic: Gene - ## for biolink 2.2.8, DGIdb:inverse_agonist maps to decreases_activity_of + ## for biolink 2.4.8, DGIdb:inverse_agonist maps to decreases_activity_of predicate: affects qualifiers: qualified_predicate: causes @@ -1249,7 +1259,7 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:inverse_agonist maps to the inverse of decreases_activity_of + ## for biolink 2.4.8, DGIdb:inverse_agonist maps to the inverse of decreases_activity_of predicate: affected_by qualifiers: qualified_predicate: caused_by @@ -1286,7 +1296,7 @@ components: - id: NCBIGene semantic: Gene ## could also use "entity regulates entity"? see def: https://dgidb.org/interaction_types - ## for biolink 2.2.8, DGIdb:modulator maps to affects_activity_of + ## for biolink 2.4.8, DGIdb:modulator maps to affects_activity_of predicate: affects qualifiers: object_aspect_qualifier: activity @@ -1318,7 +1328,7 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:modulator maps to the inverse of affects_activity_of + ## for biolink 2.4.8, DGIdb:modulator maps to the inverse of affects_activity_of predicate: affected_by qualifiers: subject_aspect_qualifier: activity @@ -1353,7 +1363,7 @@ components: # outputs: # - id: NCBIGene # semantic: Gene - # ## for biolink 2.2.8, DGIdb:negative_modulator maps to decreases_activity_of + # ## for biolink 2.4.8, DGIdb:negative_modulator maps to decreases_activity_of # predicate: affects # qualifiers: # qualified_predicate: causes @@ -1387,7 +1397,7 @@ components: # outputs: # - id: "CHEMBL.COMPOUND" # semantic: SmallMolecule - # ## for biolink 2.2.8, DGIdb:negative_modulator maps to the inverse of decreases_activity_of + # ## for biolink 2.4.8, DGIdb:negative_modulator maps to the inverse of decreases_activity_of # predicate: affected_by # qualifiers: # qualified_predicate: caused_by @@ -1484,7 +1494,7 @@ components: outputs: - id: NCBIGene semantic: Gene - ## for biolink 2.2.8, DGIdb:partial_agonist maps to increases_activity_of + ## for biolink 2.4.8, DGIdb:partial_agonist maps to increases_activity_of predicate: affects qualifiers: qualified_predicate: causes @@ -1518,7 +1528,7 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:partial_agonist maps to the inverse of increases_activity_of + ## for biolink 2.4.8, DGIdb:partial_agonist maps to the inverse of increases_activity_of predicate: affected_by qualifiers: qualified_predicate: caused_by @@ -1554,7 +1564,7 @@ components: outputs: - id: NCBIGene semantic: Gene - ## biolink 2.2.8: using mapping to GAMMA / CHEMBL.MECHANISM positive_modulator term. using increases_activity_of + ## biolink 2.4.8: using mapping to GAMMA / CHEMBL.MECHANISM positive_modulator term. using increases_activity_of predicate: affects qualifiers: qualified_predicate: causes @@ -1588,7 +1598,7 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## biolink 2.2.8: using inverse of mapping to GAMMA / CHEMBL.MECHANISM positive_modulator term (activity_increased_by) + ## biolink 2.4.8: using inverse of mapping to GAMMA / CHEMBL.MECHANISM positive_modulator term (activity_increased_by) predicate: affected_by qualifiers: qualified_predicate: caused_by @@ -1625,7 +1635,7 @@ components: # outputs: # - id: NCBIGene # semantic: Gene - # ## biolink 2.2.8: using mapping for GAMMA:suppressor, so using decreases_activity_of + # ## biolink 2.4.8: using mapping for GAMMA:suppressor, so using decreases_activity_of # predicate: affects # qualifiers: # qualified_predicate: causes @@ -1659,7 +1669,7 @@ components: # outputs: # - id: "CHEMBL.COMPOUND" # semantic: SmallMolecule - # ## biolink 2.2.8: using inverse of mapping for GAMMA:suppressor (so using activity_decreased_by) + # ## biolink 2.4.8: using inverse of mapping for GAMMA:suppressor (so using activity_decreased_by) # predicate: affected_by # qualifiers: # qualified_predicate: caused_by @@ -1696,7 +1706,7 @@ components: # outputs: # - id: NCBIGene # semantic: Gene - # ## using a different predicate than the biolink 2.2.8 mapping (decreases_activity_of) + # ## using a different predicate than the biolink 2.4.8 mapping (decreases_activity_of) # ## reasoning: thought its def https://dgidb.org/interaction_types was similar to https://github.com/biolink/biolink-model/blob/c73899cd33753c5d2ff937213b6c5911c579b001/biolink-model.yaml#L2918 # predicate: affects_response_to # source: "infores:dgidb" @@ -1726,7 +1736,7 @@ components: # outputs: # - id: "CHEMBL.COMPOUND" # semantic: SmallMolecule - # ## using a different predicate than the biolink 2.2.8 mapping (decreases_activity_of) + # ## using a different predicate than the biolink 2.4.8 mapping (decreases_activity_of) # ## reasoning: thought its def https://dgidb.org/interaction_types was similar to https://github.com/biolink/biolink-model/blob/c73899cd33753c5d2ff937213b6c5911c579b001/biolink-model.yaml#L2918 # predicate: response_affected_by # source: "infores:dgidb" From f2c04435d280f8707ef4af22f4be33bbf41a3108 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Thu, 27 Oct 2022 18:23:26 -0700 Subject: [PATCH 11/46] dgidb: refine predicates/qualifiers,comments. including interacts_with --- dgidb/openapi.yml | 79 +++++++++++++++++++++++------------------------ 1 file changed, 38 insertions(+), 41 deletions(-) diff --git a/dgidb/openapi.yml b/dgidb/openapi.yml index 846a7801..b9d2289b 100644 --- a/dgidb/openapi.yml +++ b/dgidb/openapi.yml @@ -509,12 +509,15 @@ components: outputs: - id: NCBIGene semantic: Gene - ## biolink 3.0.3: this is a mixin. Is this an issue? - ## interpretation: X "regulates" Y's "upregulated" state ## biolink 2.4.8: used entity_positively_regulates_entity - predicate: regulates + predicate: affects + ## nesting allows this main key to stay the same even with future changes qualifiers: - object_direction_qualifier: upregulated + ## key is the "qualifier_type_id", value is the "qualifier_value" in the TRAPI Edge.qualifiers spec + qualified_predicate: causes + object_aspect_qualifier: activity + object_direction_qualifier: increased + causal_mechanism_qualifier: activation ## extra since DGIdb labels these as "activator" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -542,12 +545,13 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## biolink 3.0.3: this is a mixin. Is this an issue? - ## interpretation: Y's "upregulated" state "regulated_by" X ## biolink 2.4.8: used entity_positively_regulated_by_entity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: activity + subject_direction_qualifier: increased + causal_mechanism_qualifier: activation ## extra since DGIdb labels these as "activator" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -725,13 +729,6 @@ components: object_aspect_qualifier: activity object_direction_qualifier: decreased causal_mechanism_qualifier: antagonism ## extra since DGIdb labels these as "antagonist" - ## CX: confusion over whether to use a "negatively regulates" (what is being done / the process) vs - ## "decreases activity of" (the effect) - ## - def https://dgidb.org/interaction_types and https://en.wikipedia.org/wiki/Receptor_antagonist - ## antagonists do bind to the protein - ## They often "don't induce the protein to do a thing". - ## Instead they block the agonist or signal / dampen the response to the agonist or signal... - ## think of the drug that blocks a binding site so the body's signals can't bind as often, to reduce overactivity source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -798,11 +795,8 @@ components: - id: NCBIGene semantic: Gene ## for biolink 2.4.8, was using directly_interacts_with (mapping for GAMMA:antibody) - predicate: affects + predicate: physically_interacts_with qualifiers: - qualified_predicate: causes - object_aspect_qualifier: activity - object_direction_qualifier: decreased causal_mechanism_qualifier: "antibody inhibition" ## extra since DGIdb labels these as "antibody" source: "infores:dgidb" response_mapping: @@ -832,11 +826,8 @@ components: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule ## for biolink 2.4.8, was using directly_interacts_with (mapping for GAMMA:antibody) - predicate: affected_by + predicate: physically_interacts_with qualifiers: - qualified_predicate: caused_by - subject_aspect_qualifier: activity - subject_direction_qualifier: decreased causal_mechanism_qualifier: "antibody inhibition" ## extra since DGIdb labels these as "antibody" source: "infores:dgidb" response_mapping: @@ -938,15 +929,14 @@ components: outputs: - id: NCBIGene semantic: Gene - ## CX: has the same issue as "antagonist" - ## - def https://dgidb.org/interaction_types and https://en.wikipedia.org/wiki/Receptor_antagonist + ## biolink 3.0.2: not sure if all data fits "molecular channel blockage" ## for biolink 2.4.8, DGIdb:blocker maps to decreases_activity_of predicate: affects qualifiers: qualified_predicate: causes object_aspect_qualifier: activity object_direction_qualifier: decreased - causal_mechanism_qualifier: inhibition ## not a direct mapping? + causal_mechanism_qualifier: "molecular channel blockage" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -983,7 +973,7 @@ components: qualified_predicate: caused_by subject_aspect_qualifier: activity subject_direction_qualifier: decreased - causal_mechanism_qualifier: inhibition ## not a direct mapping? + causal_mechanism_qualifier: "molecular channel blockage" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1086,9 +1076,10 @@ components: semantic: Gene ## for biolink 2.4.8, DGIdb:inhibitor maps to decreases_activity_of predicate: affects + ## uses "activity or abundance" because dgidb definition says decrease of expression or activity qualifiers: qualified_predicate: causes - object_aspect_qualifier: activity + object_aspect_qualifier: "activity or abundance" object_direction_qualifier: decreased causal_mechanism_qualifier: inhibition ## extra since DGIdb labels these as "inhibitor" source: "infores:dgidb" @@ -1122,7 +1113,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: activity + subject_aspect_qualifier: "activity or abundance" subject_direction_qualifier: decreased causal_mechanism_qualifier: inhibition ## extra since DGIdb labels these as "inhibitor" source: "infores:dgidb" @@ -1298,8 +1289,9 @@ components: ## could also use "entity regulates entity"? see def: https://dgidb.org/interaction_types ## for biolink 2.4.8, DGIdb:modulator maps to affects_activity_of predicate: affects + ## uses "activity or abundance" because dgidb "negative modulator" definition uses amount or activity qualifiers: - object_aspect_qualifier: activity + object_aspect_qualifier: "activity or abundance" ## no causal_mechanism_qualifier for "modulator" source: "infores:dgidb" response_mapping: @@ -1331,7 +1323,7 @@ components: ## for biolink 2.4.8, DGIdb:modulator maps to the inverse of affects_activity_of predicate: affected_by qualifiers: - subject_aspect_qualifier: activity + subject_aspect_qualifier: "activity or abundance" ## no causal_mechanism_qualifier for "modulator" source: "infores:dgidb" response_mapping: @@ -1365,9 +1357,10 @@ components: # semantic: Gene # ## for biolink 2.4.8, DGIdb:negative_modulator maps to decreases_activity_of # predicate: affects + # ## uses "activity or abundance" because dgidb definition says both # qualifiers: # qualified_predicate: causes - # object_aspect_qualifier: activity + # object_aspect_qualifier: "activity or abundance" # object_direction_qualifier: decreased # ## no causal_mechanism_qualifier for "negative modulator" # source: "infores:dgidb" @@ -1401,7 +1394,7 @@ components: # predicate: affected_by # qualifiers: # qualified_predicate: caused_by - # subject_aspect_qualifier: activity + # subject_aspect_qualifier: "activity or abundance" # subject_direction_qualifier: decreased # ## no causal_mechanism_qualifier for "negative modulator" # source: "infores:dgidb" @@ -1435,7 +1428,8 @@ components: - id: NCBIGene semantic: Gene ## DGIdb drug-gene interactions - predicate: interacts_with + ## for biolink 2.4.8, used interacts_with + predicate: related_to source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -1464,7 +1458,8 @@ components: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule ## DGIdb drug-gene interactions - predicate: interacts_with + ## for biolink 2.4.8, used interacts_with + predicate: related_to source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1500,7 +1495,7 @@ components: qualified_predicate: causes object_aspect_qualifier: activity object_direction_qualifier: increased - ## no causal_mechanism_qualifier for "partial agonism". could use agonism? + causal_mechanism_qualifier: agonism source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -1534,7 +1529,7 @@ components: qualified_predicate: caused_by subject_aspect_qualifier: activity subject_direction_qualifier: increased - ## no causal_mechanism_qualifier for "partial agonism". could use agonism? + causal_mechanism_qualifier: agonism source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1566,6 +1561,7 @@ components: semantic: Gene ## biolink 2.4.8: using mapping to GAMMA / CHEMBL.MECHANISM positive_modulator term. using increases_activity_of predicate: affects + ## not using "activity or abundance" because dgidb definition only mentions activity qualifiers: qualified_predicate: causes object_aspect_qualifier: activity @@ -1637,9 +1633,10 @@ components: # semantic: Gene # ## biolink 2.4.8: using mapping for GAMMA:suppressor, so using decreases_activity_of # predicate: affects + # ## using "activity or abundance" because the drugbank examples involve both # qualifiers: # qualified_predicate: causes - # object_aspect_qualifier: activity + # object_aspect_qualifier: "activity or abundance" # object_direction_qualifier: decreased # ## no causal_mechanism_qualifier for "suppressor" # source: "infores:dgidb" @@ -1673,7 +1670,7 @@ components: # predicate: affected_by # qualifiers: # qualified_predicate: caused_by - # subject_aspect_qualifier: activity + # subject_aspect_qualifier: "activity or abundance" # subject_direction_qualifier: decreased # ## no causal_mechanism_qualifier for "suppressor" # source: "infores:dgidb" @@ -1707,7 +1704,7 @@ components: # - id: NCBIGene # semantic: Gene # ## using a different predicate than the biolink 2.4.8 mapping (decreases_activity_of) - # ## reasoning: thought its def https://dgidb.org/interaction_types was similar to https://github.com/biolink/biolink-model/blob/c73899cd33753c5d2ff937213b6c5911c579b001/biolink-model.yaml#L2918 + # ## reasoning: thought its def https://dgidb.org/interaction_types was similar to https://github.com/biolink/biolink-model/blob/master/biolink-model.yaml#L2381 # predicate: affects_response_to # source: "infores:dgidb" # response_mapping: @@ -1737,7 +1734,7 @@ components: # - id: "CHEMBL.COMPOUND" # semantic: SmallMolecule # ## using a different predicate than the biolink 2.4.8 mapping (decreases_activity_of) - # ## reasoning: thought its def https://dgidb.org/interaction_types was similar to https://github.com/biolink/biolink-model/blob/c73899cd33753c5d2ff937213b6c5911c579b001/biolink-model.yaml#L2918 + # ## reasoning: thought its def https://dgidb.org/interaction_types was similar to https://github.com/biolink/biolink-model/blob/master/biolink-model.yaml#L2381 # predicate: response_affected_by # source: "infores:dgidb" # response_mapping: From d24d07f2a31c6d078b9cacb3b5dc5802fb84a620 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Thu, 27 Oct 2022 18:40:22 -0700 Subject: [PATCH 12/46] idisk, mychem: update causes_adverse_event predicate and its inverse for biolink 3.0.2 --- idisk/smartapi.yaml | 10 ++++++---- mychem.info/openapi_full.yml | 5 +++-- 2 files changed, 9 insertions(+), 6 deletions(-) diff --git a/idisk/smartapi.yaml b/idisk/smartapi.yaml index a0c5c547..478c27fd 100644 --- a/idisk/smartapi.yaml +++ b/idisk/smartapi.yaml @@ -466,7 +466,8 @@ components: ## no prefix on output id fields: has_adverse_effect_on.meddra,has_adverse_effect_on.source.name size: 1000 ## size limit; just in case - predicate: causes_adverse_event ## closest biolink predicate? + ## biolink 2.4.8: used causes_adverse_event + predicate: has_adverse_event ## iDISK got all these relations from NMCD: Natural Medicines Comprehensive Database ## ref: Table 3 of the linked publication, or by comparing number of records total with ## the number of records from https://biothings.ncats.io/idisk/query?q=has_adverse_effect_on.source.name:%22NMCD%22 @@ -495,7 +496,7 @@ components: parameters: fields: umls ## no prefix size: 1000 ## note size limit - predicate: adverse_event_caused_by + predicate: adverse_event_of source: "infores:idisk" response_mapping: $ref: '#/components/x-bte-response-mapping/rev' @@ -527,7 +528,8 @@ components: ## no prefix on output id fields: has_adverse_reaction.umls,has_adverse_reaction.source.name size: 1000 ## size limit; just in case - predicate: causes_adverse_event ## closest biolink predicate? + ## biolink 2.4.8: used causes_adverse_event + predicate: has_adverse_event ## iDISK got all these relations from MSKCC: “About Herbs” page on the Memorial Sloan Kettering Cancer Center (MSKCC) website ## ref: Table 3 of the linked publication, or by comparing number of records total with ## the number of records from https://biothings.ncats.io/idisk/query?q=has_adverse_reaction.source.name:%22MSKCC%22 @@ -556,7 +558,7 @@ components: parameters: fields: umls ## no prefix size: 1000 ## note size limit - predicate: adverse_event_caused_by + predicate: adverse_event_of source: "infores:idisk" response_mapping: $ref: '#/components/x-bte-response-mapping/rev' diff --git a/mychem.info/openapi_full.yml b/mychem.info/openapi_full.yml index 07ce2d0d..2766e4cb 100644 --- a/mychem.info/openapi_full.yml +++ b/mychem.info/openapi_full.yml @@ -1023,7 +1023,8 @@ components: drugcentral.fda_adverse_event.no_drug_ae, drugcentral.fda_adverse_event.no_drug_no_ar size: 1000 ## note size limit; added just in case - predicate: causes_adverse_event ## current biolink predicate + ## biolink 2.4.8: used causes_adverse_event + predicate: has_adverse_event ## through drugcentral, FDA Adverse Event Reporting System (FAERS) information source: "infores:drugcentral" response_mapping: @@ -1048,7 +1049,7 @@ components: parameters: fields: drugcentral.xrefs.chembl_id size: 1000 ## note size limit - predicate: adverse_event_caused_by ## current biolink predicate + predicate: adverse_event_of ## through drugcentral, FDA Adverse Event Reporting System (FAERS) information source: "infores:drugcentral" response_mapping: From 674775041d75075fd29605cdfb1e9af9a376451f Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Thu, 27 Oct 2022 18:45:26 -0700 Subject: [PATCH 13/46] semmeddb: change associated_with predicate to related_to, due to definition of associated_with in biolink 3.0.2 --- semmeddb/generated_operations.yaml | 226 ++++++++++++++--------------- semmeddb/smartapi.yaml | 226 ++++++++++++++--------------- 2 files changed, 226 insertions(+), 226 deletions(-) diff --git a/semmeddb/generated_operations.yaml b/semmeddb/generated_operations.yaml index 9cf85426..fcfb6696 100644 --- a/semmeddb/generated_operations.yaml +++ b/semmeddb/generated_operations.yaml @@ -615,7 +615,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -637,7 +637,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -791,7 +791,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -813,7 +813,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -835,7 +835,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -1999,7 +1999,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -2541,7 +2541,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -2563,7 +2563,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -2761,7 +2761,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -2783,7 +2783,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -3047,7 +3047,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -3069,7 +3069,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -3267,7 +3267,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -3289,7 +3289,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -4315,7 +4315,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -4425,7 +4425,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -4447,7 +4447,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -7827,7 +7827,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -7849,7 +7849,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -7965,7 +7965,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8661,7 +8661,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8683,7 +8683,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8773,7 +8773,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -10049,7 +10049,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -10407,7 +10407,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -10429,7 +10429,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -10561,7 +10561,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -10583,7 +10583,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11423,7 +11423,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: MolecularActivity - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -11445,7 +11445,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11827,7 +11827,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -14351,7 +14351,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14463,7 +14463,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14573,7 +14573,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14845,7 +14845,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -14891,7 +14891,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15401,7 +15401,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15423,7 +15423,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16231,7 +16231,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16277,7 +16277,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -17323,7 +17323,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -17367,7 +17367,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -18435,7 +18435,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -18457,7 +18457,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -18703,7 +18703,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19213,7 +19213,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19235,7 +19235,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -19503,7 +19503,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -19813,7 +19813,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19947,7 +19947,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -20669,7 +20669,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -20801,7 +20801,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -21337,7 +21337,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -21359,7 +21359,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22819,7 +22819,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22841,7 +22841,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25013,7 +25013,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25035,7 +25035,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25833,7 +25833,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25855,7 +25855,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26647,7 +26647,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26779,7 +26779,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26823,7 +26823,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28233,7 +28233,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28255,7 +28255,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29355,7 +29355,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29799,7 +29799,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29869,7 +29869,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30995,7 +30995,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31995,7 +31995,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33699,7 +33699,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33721,7 +33721,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35961,7 +35961,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35983,7 +35983,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36563,7 +36563,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36585,7 +36585,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Food - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37463,7 +37463,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -38055,7 +38055,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -38101,7 +38101,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -38299,7 +38299,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -38437,7 +38437,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -38459,7 +38459,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39955,7 +39955,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40763,7 +40763,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41391,7 +41391,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -41547,7 +41547,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42575,7 +42575,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44279,7 +44279,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -44301,7 +44301,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45311,7 +45311,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45977,7 +45977,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -47393,7 +47393,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48647,7 +48647,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -48669,7 +48669,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49459,7 +49459,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50037,7 +50037,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50685,7 +50685,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50707,7 +50707,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Protein - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51159,7 +51159,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -51293,7 +51293,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -51315,7 +51315,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51651,7 +51651,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -52029,7 +52029,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -53031,7 +53031,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -53053,7 +53053,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53895,7 +53895,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -54671,7 +54671,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -55093,7 +55093,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -55519,7 +55519,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -55541,7 +55541,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -55563,7 +55563,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -55585,7 +55585,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -55673,7 +55673,7 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' diff --git a/semmeddb/smartapi.yaml b/semmeddb/smartapi.yaml index 382c01eb..2bb9d18a 100644 --- a/semmeddb/smartapi.yaml +++ b/semmeddb/smartapi.yaml @@ -3617,7 +3617,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -3639,7 +3639,7 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -3793,7 +3793,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -3815,7 +3815,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -3837,7 +3837,7 @@ components: outputs: - id: UMLS semantic: Gene - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5001,7 +5001,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -5543,7 +5543,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -5565,7 +5565,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5763,7 +5763,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -5785,7 +5785,7 @@ components: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -6049,7 +6049,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -6071,7 +6071,7 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -6269,7 +6269,7 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -6291,7 +6291,7 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -7317,7 +7317,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -7427,7 +7427,7 @@ components: outputs: - id: UMLS semantic: Gene - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -7449,7 +7449,7 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -10829,7 +10829,7 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -10851,7 +10851,7 @@ components: outputs: - id: UMLS semantic: Gene - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -10967,7 +10967,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -11663,7 +11663,7 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -11685,7 +11685,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11775,7 +11775,7 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -13051,7 +13051,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -13409,7 +13409,7 @@ components: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -13431,7 +13431,7 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -13563,7 +13563,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -13585,7 +13585,7 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14425,7 +14425,7 @@ components: outputs: - id: UMLS semantic: MolecularActivity - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -14447,7 +14447,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14829,7 +14829,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -17353,7 +17353,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17465,7 +17465,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17575,7 +17575,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17847,7 +17847,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -17893,7 +17893,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -18403,7 +18403,7 @@ components: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -18425,7 +18425,7 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -19233,7 +19233,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -19279,7 +19279,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -20325,7 +20325,7 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -20369,7 +20369,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -21437,7 +21437,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -21459,7 +21459,7 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21705,7 +21705,7 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22215,7 +22215,7 @@ components: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22237,7 +22237,7 @@ components: outputs: - id: UMLS semantic: Gene - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22505,7 +22505,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22815,7 +22815,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22949,7 +22949,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -23671,7 +23671,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -23803,7 +23803,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24339,7 +24339,7 @@ components: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24361,7 +24361,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25821,7 +25821,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25843,7 +25843,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28015,7 +28015,7 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28037,7 +28037,7 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28835,7 +28835,7 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28857,7 +28857,7 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29649,7 +29649,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29781,7 +29781,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29825,7 +29825,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31235,7 +31235,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31257,7 +31257,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32357,7 +32357,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32801,7 +32801,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32871,7 +32871,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33997,7 +33997,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34997,7 +34997,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36701,7 +36701,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36723,7 +36723,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -38963,7 +38963,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -38985,7 +38985,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39565,7 +39565,7 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39587,7 +39587,7 @@ components: outputs: - id: UMLS semantic: Food - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40465,7 +40465,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41057,7 +41057,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41103,7 +41103,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41301,7 +41301,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41439,7 +41439,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -41461,7 +41461,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42957,7 +42957,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43765,7 +43765,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44393,7 +44393,7 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -44549,7 +44549,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45577,7 +45577,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47281,7 +47281,7 @@ components: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -47303,7 +47303,7 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48313,7 +48313,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48979,7 +48979,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50395,7 +50395,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51649,7 +51649,7 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -51671,7 +51671,7 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -52461,7 +52461,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -53039,7 +53039,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53687,7 +53687,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -53709,7 +53709,7 @@ components: outputs: - id: UMLS semantic: Protein - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54161,7 +54161,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -54295,7 +54295,7 @@ components: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -54317,7 +54317,7 @@ components: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54653,7 +54653,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -55031,7 +55031,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -56033,7 +56033,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -56055,7 +56055,7 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -56897,7 +56897,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -57673,7 +57673,7 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -58095,7 +58095,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -58521,7 +58521,7 @@ components: outputs: - id: UMLS semantic: Gene - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -58543,7 +58543,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -58565,7 +58565,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -58587,7 +58587,7 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -58675,7 +58675,7 @@ components: outputs: - id: UMLS semantic: Disease - predicate: associated_with + predicate: related_to source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' From 7bd11ba870501c41649c11814f31df398318e025 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Thu, 27 Oct 2022 19:05:17 -0700 Subject: [PATCH 14/46] dgidb: adjust commented-out operation inducer --- dgidb/openapi.yml | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/dgidb/openapi.yml b/dgidb/openapi.yml index b9d2289b..d52f0381 100644 --- a/dgidb/openapi.yml +++ b/dgidb/openapi.yml @@ -1006,11 +1006,12 @@ components: # semantic: Gene # ## for biolink 2.4.8, DGIdb:inducer maps to increases_activity_of # predicate: affects + # ## dgidb definition doesn't match biolink 3.0.2's inducer definition + # ## so not using that causal_mechanism_qualifier # qualifiers: # qualified_predicate: causes # object_aspect_qualifier: activity # object_direction_qualifier: increased - # causal_mechanism_qualifier: inducer ## extra since DGIdb labels these as "inducer" # source: "infores:dgidb" # response_mapping: # "$ref": "#/components/x-bte-response-mapping/forward" @@ -1044,7 +1045,6 @@ components: # qualified_predicate: caused_by # subject_aspect_qualifier: activity # subject_direction_qualifier: increased - # causal_mechanism_qualifier: inducer ## extra since DGIdb labels these as "inducer" # source: "infores:dgidb" # response_mapping: # "$ref": "#/components/x-bte-response-mapping/reverse" From 65a7c804092cd0e2b4fdaf1d63ebe10fb6f5eacb Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Thu, 27 Oct 2022 23:29:43 -0700 Subject: [PATCH 15/46] biolink/monarch and idisk: update interacts_with predicate for biolink 3.0.2 --- biolink/openapi.yml | 5 ++++- idisk/smartapi.yaml | 5 +++-- 2 files changed, 7 insertions(+), 3 deletions(-) diff --git a/biolink/openapi.yml b/biolink/openapi.yml index 3dbec6f3..9e7a09e4 100644 --- a/biolink/openapi.yml +++ b/biolink/openapi.yml @@ -1094,7 +1094,10 @@ components: outputs: - id: HGNC semantic: Gene - predicate: interacts_with + ## biolink 2.4.8: used interacts_with + ## looks like they are using biogrid? And it looks like there's all kinds of interactions + ## with all levels of certainty + predicate: related_to source: "infores:monarchinitiative" response_mapping: "$ref": "#/components/x-bte-response-mapping/gene-hgnc" diff --git a/idisk/smartapi.yaml b/idisk/smartapi.yaml index 478c27fd..acc22564 100644 --- a/idisk/smartapi.yaml +++ b/idisk/smartapi.yaml @@ -588,7 +588,8 @@ components: ## no prefix on output id fields: interacts_with.umls,interacts_with.source.name size: 1000 ## size limit; just in case - predicate: interacts_with ## closest biolink predicate? + ## biolink 2.4.8: was using interacts_with + predicate: chemically_interacts_with ## closest biolink predicate? source: "infores:idisk" response_mapping: $ref: '#/components/x-bte-response-mapping/interacts_with' @@ -614,7 +615,7 @@ components: parameters: fields: umls size: 1000 ## note size limit - predicate: interacts_with + predicate: chemically_interacts_with source: "infores:idisk" response_mapping: $ref: '#/components/x-bte-response-mapping/rev' From 32463d98ecf9df02ea2986da24d525be4fb9d849 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Thu, 27 Oct 2022 23:29:56 -0700 Subject: [PATCH 16/46] dgidb: update comments --- dgidb/openapi.yml | 7 ++----- 1 file changed, 2 insertions(+), 5 deletions(-) diff --git a/dgidb/openapi.yml b/dgidb/openapi.yml index d52f0381..a326e206 100644 --- a/dgidb/openapi.yml +++ b/dgidb/openapi.yml @@ -583,9 +583,7 @@ components: semantic: Gene ## for biolink 2.4.8, DGIdb:agonist maps to increases_activity_of predicate: affects - ## nesting allows this main key to stay the same even with future changes qualifiers: - ## key is the "qualifier_type_id", value is the "qualifier_value" in the TRAPI Edge.qualifiers spec qualified_predicate: causes object_aspect_qualifier: activity object_direction_qualifier: increased @@ -1111,6 +1109,7 @@ components: semantic: SmallMolecule ## for biolink 2.4.8, DGIdb:inhibitor maps to the inverse of decreases_activity_of predicate: affected_by + ## uses "activity or abundance" because dgidb definition says decrease of expression or activity qualifiers: qualified_predicate: caused_by subject_aspect_qualifier: "activity or abundance" @@ -1703,7 +1702,7 @@ components: # outputs: # - id: NCBIGene # semantic: Gene - # ## using a different predicate than the biolink 2.4.8 mapping (decreases_activity_of) + # ## using a different predicate than the biolink mapping (decreases_activity_of) # ## reasoning: thought its def https://dgidb.org/interaction_types was similar to https://github.com/biolink/biolink-model/blob/master/biolink-model.yaml#L2381 # predicate: affects_response_to # source: "infores:dgidb" @@ -1733,8 +1732,6 @@ components: # outputs: # - id: "CHEMBL.COMPOUND" # semantic: SmallMolecule - # ## using a different predicate than the biolink 2.4.8 mapping (decreases_activity_of) - # ## reasoning: thought its def https://dgidb.org/interaction_types was similar to https://github.com/biolink/biolink-model/blob/master/biolink-model.yaml#L2381 # predicate: response_affected_by # source: "infores:dgidb" # response_mapping: From 186faf3b69d9856c144732c0938209e2e3952e1b Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Thu, 27 Oct 2022 23:32:42 -0700 Subject: [PATCH 17/46] idisk: keep interacts_with predicate --- idisk/smartapi.yaml | 5 ++--- 1 file changed, 2 insertions(+), 3 deletions(-) diff --git a/idisk/smartapi.yaml b/idisk/smartapi.yaml index acc22564..478c27fd 100644 --- a/idisk/smartapi.yaml +++ b/idisk/smartapi.yaml @@ -588,8 +588,7 @@ components: ## no prefix on output id fields: interacts_with.umls,interacts_with.source.name size: 1000 ## size limit; just in case - ## biolink 2.4.8: was using interacts_with - predicate: chemically_interacts_with ## closest biolink predicate? + predicate: interacts_with ## closest biolink predicate? source: "infores:idisk" response_mapping: $ref: '#/components/x-bte-response-mapping/interacts_with' @@ -615,7 +614,7 @@ components: parameters: fields: umls size: 1000 ## note size limit - predicate: chemically_interacts_with + predicate: interacts_with source: "infores:idisk" response_mapping: $ref: '#/components/x-bte-response-mapping/rev' From f34dffa5c47d10c31e58fdeb1e2173b9e5de24d1 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Thu, 27 Oct 2022 23:38:26 -0700 Subject: [PATCH 18/46] biolink/monarch: update comment --- biolink/openapi.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/biolink/openapi.yml b/biolink/openapi.yml index 9e7a09e4..59efcc29 100644 --- a/biolink/openapi.yml +++ b/biolink/openapi.yml @@ -1096,7 +1096,7 @@ components: semantic: Gene ## biolink 2.4.8: used interacts_with ## looks like they are using biogrid? And it looks like there's all kinds of interactions - ## with all levels of certainty + ## with all levels of certainty https://wiki.thebiogrid.org/doku.php/experimental_systems predicate: related_to source: "infores:monarchinitiative" response_mapping: From 6d8030ae9bad8799fbc6fb25309e3c6e53893620 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Mon, 31 Oct 2022 14:11:55 -0700 Subject: [PATCH 19/46] semmeddb: fix accidental empty lines --- semmeddb/generated_operations.yaml | 4 ---- semmeddb/smartapi.yaml | 4 ---- 2 files changed, 8 deletions(-) diff --git a/semmeddb/generated_operations.yaml b/semmeddb/generated_operations.yaml index fcfb6696..ca4fa4a7 100644 --- a/semmeddb/generated_operations.yaml +++ b/semmeddb/generated_operations.yaml @@ -972,10 +972,6 @@ x-bte-kgs-operations: predicate: regulated_by qualifiers: subject_direction_qualifier: downregulated - - - - source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' diff --git a/semmeddb/smartapi.yaml b/semmeddb/smartapi.yaml index 2bb9d18a..672f9628 100644 --- a/semmeddb/smartapi.yaml +++ b/semmeddb/smartapi.yaml @@ -3974,10 +3974,6 @@ components: predicate: regulated_by qualifiers: subject_direction_qualifier: downregulated - - - - source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' From 828d955bc40d398c6bde5eb41d2888671b49e1cd Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Mon, 31 Oct 2022 14:12:43 -0700 Subject: [PATCH 20/46] DISEASES,biolink/monarch,idisk,mychem: update source response-mapping --- DISEASES/smartapi.yaml | 2 +- biolink/openapi.yml | 12 ++++++------ idisk/smartapi.yaml | 9 +++++---- mychem.info/openapi_full.yml | 2 +- 4 files changed, 13 insertions(+), 12 deletions(-) diff --git a/DISEASES/smartapi.yaml b/DISEASES/smartapi.yaml index 03fe2120..2e209c4d 100644 --- a/DISEASES/smartapi.yaml +++ b/DISEASES/smartapi.yaml @@ -508,7 +508,7 @@ components: ## I see source for knowledge / experiments results ## for knowledge, I've seen: GHR, UniProtKB-KW, AmyCo ## for experiments, I've seen: DistiLD - source: DISEASES.associatedWith.source + DISEASES_source_database: DISEASES.associatedWith.source ## I see evidence for knowledge / experiments results ## for knowledge, I've only seen "CURATED" ## for experiments, I see things like "p-value = 3e-06" diff --git a/biolink/openapi.yml b/biolink/openapi.yml index 59efcc29..a1084000 100644 --- a/biolink/openapi.yml +++ b/biolink/openapi.yml @@ -787,34 +787,34 @@ components: x-bte-response-mapping: gene-hgnc: HGNC: associations.object.HGNC - source: associations.provided_by + monarch_source_database: associations.provided_by ## there's also a relation.id and relation.inverse. ## this often has "expressed in" with inverse: true. Meaning the actual relation should be "expresses" relation: associations.relation.label pubmed: associations.publications.id pathway-react: REACT: associations.object.REACT - source: associations.provided_by + monarch_source_database: associations.provided_by relation: associations.relation.label pubmed: associations.publications.id phenotype-hp: HP: associations.object.HP - source: associations.provided_by + monarch_source_database: associations.provided_by pubmed: associations.publications.id relation: associations.relation.label variant-dbsnp: DBSNP: associations.object.dbSNP - source: associations.provided_by + monarch_source_database: associations.provided_by pubmed: associations.publications.id relation: associations.relation.label anatomy-uberon: UBERON: associations.object.UBERON - source: associations.provided_by + monarch_source_database: associations.provided_by pubmed: associations.publications.id relation: associations.relation.label disease-mondo: MONDO: associations.object.MONDO - source: associations.provided_by + monarch_source_database: associations.provided_by relation: associations.relation.label pubmed: associations.publications.id x-bte-kgs-operations: diff --git a/idisk/smartapi.yaml b/idisk/smartapi.yaml index 478c27fd..80056d7d 100644 --- a/idisk/smartapi.yaml +++ b/idisk/smartapi.yaml @@ -682,15 +682,16 @@ components: ## name not included since BTE doesn't ingest it right now... has_adverse_effect_on: MEDDRA: has_adverse_effect_on.meddra - source: has_adverse_effect_on.source.name + idisk_source: has_adverse_effect_on.source.name rev: + ## could also include the name field (as "original subject name"?) UMLS: umls has_adverse_reaction: UMLS: has_adverse_reaction.umls - source: has_adverse_reaction.source.name + idisk_source: has_adverse_reaction.source.name interacts_with: UMLS: interacts_with.umls - source: interacts_with.source.name + idisk_source: interacts_with.source.name is_effective_for: UMLS: is_effective_for.umls - source: is_effective_for.source.name + idisk_source: is_effective_for.source.name diff --git a/mychem.info/openapi_full.yml b/mychem.info/openapi_full.yml index 2766e4cb..16b3208c 100644 --- a/mychem.info/openapi_full.yml +++ b/mychem.info/openapi_full.yml @@ -479,7 +479,7 @@ components: year_first_approved: chembl.drug_indications.first_approval ## provenance-related field. Sources are ATC, ClinicalTrial, DailyMed, FDA reference_urls: chembl.drug_indications.indication_refs.url - source: chembl.drug_indications.indication_refs.type + chembl_source: chembl.drug_indications.indication_refs.type chembl: "CHEMBL.COMPOUND": chembl.molecule_chembl_id ## no prefix drugcentral-bioactivity: From e94ae27bacfaa227ce7491dd7d6bf51fff944189 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Mon, 31 Oct 2022 17:31:00 -0700 Subject: [PATCH 21/46] biolink/monarch,mygene,quickgo: update relation -> biolink:original_predicate --- biolink/openapi.yml | 12 ++++++------ mygene.info/openapi_full.yml | 6 +++--- quickgo/smartapi.yaml | 2 +- 3 files changed, 10 insertions(+), 10 deletions(-) diff --git a/biolink/openapi.yml b/biolink/openapi.yml index a1084000..5e0bef74 100644 --- a/biolink/openapi.yml +++ b/biolink/openapi.yml @@ -790,32 +790,32 @@ components: monarch_source_database: associations.provided_by ## there's also a relation.id and relation.inverse. ## this often has "expressed in" with inverse: true. Meaning the actual relation should be "expresses" - relation: associations.relation.label + "biolink:original_predicate": associations.relation.label pubmed: associations.publications.id pathway-react: REACT: associations.object.REACT monarch_source_database: associations.provided_by - relation: associations.relation.label + "biolink:original_predicate": associations.relation.label pubmed: associations.publications.id phenotype-hp: HP: associations.object.HP monarch_source_database: associations.provided_by pubmed: associations.publications.id - relation: associations.relation.label + "biolink:original_predicate": associations.relation.label variant-dbsnp: DBSNP: associations.object.dbSNP monarch_source_database: associations.provided_by pubmed: associations.publications.id - relation: associations.relation.label + "biolink:original_predicate": associations.relation.label anatomy-uberon: UBERON: associations.object.UBERON monarch_source_database: associations.provided_by pubmed: associations.publications.id - relation: associations.relation.label + "biolink:original_predicate": associations.relation.label disease-mondo: MONDO: associations.object.MONDO monarch_source_database: associations.provided_by - relation: associations.relation.label + "biolink:original_predicate": associations.relation.label pubmed: associations.publications.id x-bte-kgs-operations: ## other useful endpoints for x-bte annotation are... diff --git a/mygene.info/openapi_full.yml b/mygene.info/openapi_full.yml index 77063226..eaeaf8fb 100644 --- a/mygene.info/openapi_full.yml +++ b/mygene.info/openapi_full.yml @@ -780,17 +780,17 @@ components: GO: go.BP.id ## HAS PREFIX (GO) evidence: go.BP.evidence ## categorical variable? pubmed: go.BP.pubmed - relation: go.BP.qualifier ## seems to be like a relation + "biolink:original_predicate": go.BP.qualifier ## seems to be like a relation molecularFunction: GO: go.MF.id ## HAS PREFIX (GO) evidence: go.MF.evidence ## categorical variable? pubmed: go.MF.pubmed - relation: go.MF.qualifier ## seems to be like a relation + "biolink:original_predicate": go.MF.qualifier ## seems to be like a relation cellularComponent: GO: go.CC.id ## HAS PREFIX (GO) evidence: go.CC.evidence ## categorical variable? pubmed: go.CC.pubmed - relation: go.CC.qualifier ## seems to be like a relation + "biolink:original_predicate": go.CC.qualifier ## seems to be like a relation clingen: MONDO: clingen.clinical_validity.mondo ## HAS PREFIX (MONDO) ## possible values for classification: definitive, moderate, limited, disputed, refuted (!!!), no known disease relationship (!!!) diff --git a/quickgo/smartapi.yaml b/quickgo/smartapi.yaml index 3cad0e0a..6054fd7d 100644 --- a/quickgo/smartapi.yaml +++ b/quickgo/smartapi.yaml @@ -67,4 +67,4 @@ components: x-bte-response-mapping: ma_has_subclass_ma: GO: results.children.id ## has prefix (GO) - relation: results.children.relation + "biolink:original_predicate": results.children.relation From 7860b471a791a2a4cf6133109f4d73a77bfde183 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Mon, 31 Oct 2022 17:50:43 -0700 Subject: [PATCH 22/46] bindingdb,mychem,mygene,pfocr: update edge-attribute url keys most update to biolink:source_web_page --- bindingdb/smartapi.yaml | 12 ++++++------ mychem.info/openapi_full.yml | 2 +- mygene.info/openapi_full.yml | 2 +- pfocr/smartapi.yaml | 6 +++--- 4 files changed, 11 insertions(+), 11 deletions(-) diff --git a/bindingdb/smartapi.yaml b/bindingdb/smartapi.yaml index 5fb7b293..c517b565 100644 --- a/bindingdb/smartapi.yaml +++ b/bindingdb/smartapi.yaml @@ -500,18 +500,18 @@ components: pubchem-object: "PUBCHEM.COMPOUND": object.pubchem_cid ## no prefix "biolink:original_subject": subject.name ## was called "Target Name Assigned by Curator or DataSource" - "in_taxon": subject.organism ## was called "Target Source Organism According to Curator or DataSource" - "bindingdb_curation_datasource": relation.curation_datasource ## Curation/DataSource + in_taxon: subject.organism ## was called "Target Source Organism According to Curator or DataSource" + bindingdb_curation_datasource: relation.curation_datasource ## Curation/DataSource pubmed: relation.pmid - bindingdb_url: relation.bindingdb_link + "biolink:source_web_page": relation.bindingdb_link article_doi: relation.article_doi patent_number: relation.patent_number uniprot-subject: UniProtKB: subject.uniprot.accession ## no prefix "biolink:original_subject": subject.name - "in_taxon": subject.organism - "bindingdb_curation_datasource": relation.curation_datasource + in_taxon: subject.organism + bindingdb_curation_datasource: relation.curation_datasource pubmed: relation.pmid - bindingdb_url: relation.bindingdb_link + "biolink:source_web_page": relation.bindingdb_link article_doi: relation.article_doi patent_number: relation.patent_number \ No newline at end of file diff --git a/mychem.info/openapi_full.yml b/mychem.info/openapi_full.yml index 16b3208c..883aa459 100644 --- a/mychem.info/openapi_full.yml +++ b/mychem.info/openapi_full.yml @@ -478,7 +478,7 @@ components: max_clinical_phase_for_indication: chembl.drug_indications.max_phase_for_ind year_first_approved: chembl.drug_indications.first_approval ## provenance-related field. Sources are ATC, ClinicalTrial, DailyMed, FDA - reference_urls: chembl.drug_indications.indication_refs.url + "biolink:source_web_page": chembl.drug_indications.indication_refs.url chembl_source: chembl.drug_indications.indication_refs.type chembl: "CHEMBL.COMPOUND": chembl.molecule_chembl_id ## no prefix diff --git a/mygene.info/openapi_full.yml b/mygene.info/openapi_full.yml index eaeaf8fb..7f90ff03 100644 --- a/mygene.info/openapi_full.yml +++ b/mygene.info/openapi_full.yml @@ -795,7 +795,7 @@ components: MONDO: clingen.clinical_validity.mondo ## HAS PREFIX (MONDO) ## possible values for classification: definitive, moderate, limited, disputed, refuted (!!!), no known disease relationship (!!!) clingen_clinical_validity_classification: clingen.clinical_validity.classification - url_refs: clingen.clinical_validity.online_report + "biolink:source_web_page": clingen.clinical_validity.online_report pantherMGI: MGI: pantherdb.ortholog.MGI ## no prefix inTaxon: pantherdb.ortholog.taxid diff --git a/pfocr/smartapi.yaml b/pfocr/smartapi.yaml index a176aafa..7df204b1 100644 --- a/pfocr/smartapi.yaml +++ b/pfocr/smartapi.yaml @@ -626,16 +626,16 @@ components: ## not easy to make it clear with biolink-model terms: the publication (PMC ID) vs the figure (title and url) chem: MESH: associatedWith.mentions.chemicals.mesh ## no prefix - figure_url: associatedWith.figureUrl + figure_download_url: associatedWith.figureUrl figure_title: associatedWith.title pmc_reference: associatedWith.pmc gene: NCBIGene: associatedWith.mentions.genes.ncbigene ## no prefix - figure_url: associatedWith.figureUrl + figure_download_url: associatedWith.figureUrl figure_title: associatedWith.title pmc_reference: associatedWith.pmc disease: MESH: associatedWith.mentions.diseases.mesh ## no prefix - figure_url: associatedWith.figureUrl + figure_download_url: associatedWith.figureUrl figure_title: associatedWith.title pmc_reference: associatedWith.pmc From f5dd3be7b4e265327262e0138b5fbbae45b69d2c Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Mon, 31 Oct 2022 18:05:47 -0700 Subject: [PATCH 23/46] pfocr: update a comment --- pfocr/smartapi.yaml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/pfocr/smartapi.yaml b/pfocr/smartapi.yaml index 7df204b1..4df9396f 100644 --- a/pfocr/smartapi.yaml +++ b/pfocr/smartapi.yaml @@ -622,7 +622,7 @@ components: # oneOutput: "MESH:D002318" ## Cardiovascular Diseases ## should have 1 figure: https://biothings.ncats.io/pfocr/query?q=associatedWith.mentions.genes.ncbigene:3791%20AND%20associatedWith.mentions.diseases.mesh:D002318 x-bte-response-mapping: - ## pmc_reference kinda matches "biolink:publication". However, it doesn't have a PMC prefix so it doesn't quite have the right value... + ## pmc_reference kinda matches "biolink:publications". However, it doesn't have a PMC prefix so it doesn't quite have the right value... ## not easy to make it clear with biolink-model terms: the publication (PMC ID) vs the figure (title and url) chem: MESH: associatedWith.mentions.chemicals.mesh ## no prefix From c8d665facb9a6d3b36ce17bc330205b4e4f6e0ac Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Mon, 31 Oct 2022 23:10:16 -0700 Subject: [PATCH 24/46] EBIg2p: update response-mapping keys, comments --- EBIgene2phenotype/smartapi.yaml | 49 +++++++++++++++++++++------------ 1 file changed, 32 insertions(+), 17 deletions(-) diff --git a/EBIgene2phenotype/smartapi.yaml b/EBIgene2phenotype/smartapi.yaml index 600ba1ae..6b907d41 100644 --- a/EBIgene2phenotype/smartapi.yaml +++ b/EBIgene2phenotype/smartapi.yaml @@ -451,8 +451,10 @@ components: # - type: string x-bte-kgs-operations: ## not all records have phenotypes or disease IDs... - ## relationship is somewhat captured by DDD_category (and allelic_requirement, mutation_consequence) - ## not sure if "panel" is a "source" + ## the main relationship seems to be gene-disease, not gene-phenotype + ## vocab: our data is old so we are still using old terms https://www.ebi.ac.uk/gene2phenotype/updates_to_our_terms + ## other vocab links: https://www.ebi.ac.uk/gene2phenotype/README, https://www.ebi.ac.uk/gene2phenotype/terminology + ## see response-mapping for notes on specific fields gene_to_phenotype: - supportBatch: true useTemplating: true @@ -578,26 +580,39 @@ components: # - qInput: "OMIM:255200" ## myopathy, centronuclear, 2 # oneOutput: "HGNC:1052" ## BIN1 x-bte-response-mapping: + ## data: + ## - DDD_category seems to be "gene-disease association confidence category": https://www.ebi.ac.uk/gene2phenotype/create_panel + ## - allelic_requirement seems similar to "inheritance" but focused on the affected individual + ## (rather than inheritance from a parent) and with a bit more genetic info + ## - organ_specificity_list seems to be "organ specificity for gene-disease association": https://www.ebi.ac.uk/gene2phenotype/create_panel + ## - panels aka datasets in G2P: https://www.ebi.ac.uk/gene2phenotype/create_panel pheno-object: HP: gene2phenotype.phenotypes ## has HP prefix pubmed: gene2phenotype.pmids ## no prefix - DDD_category: gene2phenotype.DDD_category - allelic_requirement: gene2phenotype.allelic_requirement - context_disease_omim_id: gene2phenotype.disease.disease_mim ## no prefix - context_disease_name: gene2phenotype.disease.disease_name - gene_disease_pair_entry_date: gene2phenotype.gene_disease_pair_entry_date - mutation_consequence: gene2phenotype.mutation_consequence - context_organ_specificity_list: gene2phenotype.organ_specificity_list ## array of keywords (not ids or curies) - panel: gene2phenotype.panel + ## similar to "biolink:has_confidence_level" (association slot) but doesn't use the expected ontology terms + g2p_gene-disease_confidence: gene2phenotype.DDD_category + ## similar to "biolink:has_mode_of_inheritance" (predicate) but doesn't use the expected ontology terms and seems a bit different + g2p_allelic_requirement: gene2phenotype.allelic_requirement + ## disease context? although gene-disease is the main relationship... + g2p_associated_disease_omim: gene2phenotype.disease.disease_mim ## no prefix + g2p_associated_disease_name: gene2phenotype.disease.disease_name + ## using creation_date (node property) because it seems to match well + "biolink:creation_date": gene2phenotype.gene_disease_pair_entry_date + ## similar to "biolink:has_molecular_consequence" (predicate) + g2p_mutation_consequence: gene2phenotype.mutation_consequence + ## seems a bit different from a biolink:anatomical_context_qualifier + g2p_organ_specificity_for_gene-disease_association: gene2phenotype.organ_specificity_list ## array of keywords (not ids or curies) + g2p_panel: gene2phenotype.panel gene-object: HGNC: _id ## no prefix disease-object: OMIM: gene2phenotype.disease.disease_mim ## no prefix pubmed: gene2phenotype.pmids ## no prefix - DDD_category: gene2phenotype.DDD_category - allelic_requirement: gene2phenotype.allelic_requirement - gene_disease_pair_entry_date: gene2phenotype.gene_disease_pair_entry_date - mutation_consequence: gene2phenotype.mutation_consequence - context_organ_specificity_list: gene2phenotype.organ_specificity_list ## array of keywords (not ids or curies) - panel: gene2phenotype.panel - related_phenotypes: gene2phenotype.phenotypes ## has HP prefix + g2p_gene-disease_confidence: gene2phenotype.DDD_category + g2p_allelic_requirement: gene2phenotype.allelic_requirement + ## using creation_date (node property) because it seems to match well + "biolink:creation_date": gene2phenotype.gene_disease_pair_entry_date + g2p_mutation_consequence: gene2phenotype.mutation_consequence + g2p_organ_specificity_for_gene-disease_association: gene2phenotype.organ_specificity_list ## array of keywords (not ids or curies) + g2p_panel: gene2phenotype.panel + g2p_related_phenotypes: gene2phenotype.phenotypes ## has HP prefix From 7334b4e2ee92ce99cff84c43d7b6f29f3fe73171 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Mon, 31 Oct 2022 23:12:04 -0700 Subject: [PATCH 25/46] mydisease,myvariant: update response-mapping keys (trying to use biolink terms for some), comments --- mydisease.info/smartapi.yaml | 28 ++++++++++++++-------------- myvariant.info/openapi_full.yml | 8 +++++--- 2 files changed, 19 insertions(+), 17 deletions(-) diff --git a/mydisease.info/smartapi.yaml b/mydisease.info/smartapi.yaml index 15bf7e4b..f9f6a543 100644 --- a/mydisease.info/smartapi.yaml +++ b/mydisease.info/smartapi.yaml @@ -465,7 +465,7 @@ components: disease-gene: NCBIGene: disgenet.genes_related_to_disease.gene_id ## no prefix pubmed: disgenet.genes_related_to_disease.pubmed ## no prefix - source: disgenet.genes_related_to_disease.source + disgenet_source: disgenet.genes_related_to_disease.source ## could remove "disgenet-" prefix from the key ## if the key becomes the TRAPI attribute "original_attribute_name" disgenet-DPI: disgenet.genes_related_to_disease.DPI @@ -475,7 +475,7 @@ components: disease-variant: DBSNP: disgenet.variants_related_to_disease.rsid ## no prefix pubmed: disgenet.variants_related_to_disease.pubmed ## no prefix - source: disgenet.variants_related_to_disease.source + disgenet_source: disgenet.variants_related_to_disease.source ## could remove "disgenet-" prefix from the key ## if the key becomes the TRAPI attribute "original_attribute_name" disgenet-DPI: disgenet.variants_related_to_disease.DPI @@ -483,21 +483,21 @@ components: disgenet-EI: disgenet.variants_related_to_disease.EI disgenet-score: disgenet.variants_related_to_disease.score disease-phenotype: - HP: hpo.phenotype_related_to_disease.hpo_id ## HAS PREFIX (HP) + HP: hpo.phenotype_related_to_disease.hpo_id ## HAS PREFIX (HP) ## note: there are 6 reference-related fields (parser created based on ID namespace) - pubmed: hpo.phenotype_related_to_disease.pmid_refs ## HAS PREFIX (PMID) - isbn_refs: hpo.phenotype_related_to_disease.isbn_refs ## HAS PREFIX (ISBN) - website_refs: hpo.phenotype_related_to_disease.website_refs ## no prefix - decipher_refs: hpo.phenotype_related_to_disease.decipher_refs ## HAS PREFIX (DECIPHER) - omim_refs: hpo.phenotype_related_to_disease.omim_refs ## HAS PREFIX (OMIM) - orphanet_refs: hpo.phenotype_related_to_disease.orphanet_refs ## HAS PREFIX (ORPHANET) + pubmed: hpo.phenotype_related_to_disease.pmid_refs ## HAS PREFIX (PMID) + isbn_refs: hpo.phenotype_related_to_disease.isbn_refs ## HAS PREFIX (ISBN) + "biolink:source_web_page": hpo.phenotype_related_to_disease.website_refs ## no prefix + decipher_refs: hpo.phenotype_related_to_disease.decipher_refs ## HAS PREFIX (DECIPHER) + omim_refs: hpo.phenotype_related_to_disease.omim_refs ## HAS PREFIX (OMIM) + orphanet_refs: hpo.phenotype_related_to_disease.orphanet_refs ## HAS PREFIX (ORPHANET) ## note: there are 4 frequency-related fields (parser created based on different data types) - numeric_freq: hpo.phenotype_related_to_disease.numeric_freq ## decimal freq - hp_freq: hpo.phenotype_related_to_disease.hp_freq ## HP ontology freq term - freq_numerator: hpo.phenotype_related_to_disease.freq_numerator ## frequency as a fraction (numerator) - freq_denominator: hpo.phenotype_related_to_disease.freq_denominator ## frequency as a fraction (denominator) + "biolink:has_quotient": hpo.phenotype_related_to_disease.numeric_freq ## decimal freq + "biolink:frequency_qualifier": hpo.phenotype_related_to_disease.hp_freq ## HP ontology freq term + "biolink:has_count": hpo.phenotype_related_to_disease.freq_numerator ## frequency as a fraction (numerator) + "biolink:has_total": hpo.phenotype_related_to_disease.freq_denominator ## frequency as a fraction (denominator) ## value of this field is evidence codes (IEA, TAS, PCS) - hpoa_evidence_code: hpo.phenotype_related_to_disease.evidence + "biolink:evidence_type": hpo.phenotype_related_to_disease.evidence ## supposed to provide context (only present in some records) ## - modifier/onset fields are HP terms w/ prefix ## - sex will be "male" or "female" diff --git a/myvariant.info/openapi_full.yml b/myvariant.info/openapi_full.yml index 7eb116b0..44a5696c 100644 --- a/myvariant.info/openapi_full.yml +++ b/myvariant.info/openapi_full.yml @@ -382,8 +382,10 @@ components: ## provenance clinical_trial_url: civic.evidence_items.source.clinical_trials.clinical_trial_url pubmed: civic.evidence_items.source.pubmed - ## context: variant involved, could use "biolink:sequence_variant_qualifier"? + ## context: variant involved, could use "biolink:sequence_variant_qualifier" + ## but then ID-namespace would be unclear (this ID doesn't have a prefix) civic_variant_id: civic.evidence_items.variant_id + ## context: variant involved was Somatic, unknown... civic_variant_origin: civic.evidence_items.variant_origin civic-geneOnly: NCBIGene: civic.entrez_id @@ -405,7 +407,7 @@ components: ## provenance clinical_trial_url: civic.evidence_items.source.clinical_trials.clinical_trial_url pubmed: civic.evidence_items.source.pubmed - ## context: variant involved was from where + ## context: variant involved was Somatic, unknown... civic_variant_origin: civic.evidence_items.variant_origin dbsnp-rsid: DBSNP: dbsnp.rsid ## no prefix @@ -417,7 +419,7 @@ components: OMIM: clinvar.rcv.conditions.identifiers.omim ## no prefix ## edge attributes clinvar_clinical_significance: clinvar.rcv.clinical_significance ## similar to relation - clinvar_variant_rsid: dbsnp.rsid ## context: variant; could use biolink:sequence_variant_qualifier? + "biolink:sequence_variant_qualifier": dbsnp.rsid ## no prefix clinvar_submission_last_evaluated: clinvar.rcv.last_evaluated ## gives a date yyyy-mm-dd clinvar_num_submitters: clinvar.rcv.number_submitters clinvar_variant_origin: clinvar.rcv.origin From 8d5e8b6b060c2df8cce7726d7799e22388409867 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Tue, 1 Nov 2022 18:45:09 -0700 Subject: [PATCH 26/46] update biolink-version to 3.0.3, openapi to 3.0.3, and more edit some api descriptions, add comments, remove temporary yamls for bte/service provider --- DISEASES/smartapi.yaml | 2 +- EBIgene2phenotype/smartapi.yaml | 2 +- MGIgene2phenotype/smartapi.yaml | 2 +- bindingdb/smartapi.yaml | 2 +- biolink/openapi.yml | 4 +- bioplanet/bioplanet-pathway-disease.yaml | 2 +- bioplanet/bioplanet-pathway-gene.yaml | 2 +- .../service-provider-trapi.yaml | 2 +- .../service-provider-trapi_temp13.yaml | 1285 ------------ biothings_explorer/smartapi.yaml | 2 +- biothings_explorer/smartapi_temp13.yaml | 1777 ----------------- dgidb/openapi.yml | 6 +- ebi_proteins/openapi.yml | 2 +- go_bp/smartapi.yaml | 2 +- go_cc/smartapi.yaml | 2 +- go_mf/smartapi.yaml | 8 +- hpo/smartapi.yaml | 2 +- idisk/smartapi.yaml | 2 +- litvar/smartapi.yaml | 8 +- mychem.info/openapi_full.yml | 2 +- mydisease.info/smartapi.yaml | 2 +- mygene.info/openapi_full.yml | 4 +- myvariant.info/openapi_full.yml | 4 +- ols/smartapi.yaml | 5 +- pfocr/smartapi.yaml | 2 +- quickgo/smartapi.yaml | 5 +- rhea/smartapi.yaml | 2 +- semmeddb/smartapi.yaml | 2 +- semmeddb/version_without_operations.yaml | 2 +- text_mining/smartapi.yaml | 6 +- uberon/smartapi.yaml | 6 +- 31 files changed, 50 insertions(+), 3106 deletions(-) delete mode 100644 biothings_explorer/service-provider-trapi_temp13.yaml delete mode 100644 biothings_explorer/smartapi_temp13.yaml diff --git a/DISEASES/smartapi.yaml b/DISEASES/smartapi.yaml index 2e209c4d..b93a649f 100644 --- a/DISEASES/smartapi.yaml +++ b/DISEASES/smartapi.yaml @@ -15,7 +15,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.0.3" servers: - description: Encrypted Production server url: https://biothings.ncats.io/DISEASES diff --git a/EBIgene2phenotype/smartapi.yaml b/EBIgene2phenotype/smartapi.yaml index 6b907d41..d3e02ddc 100644 --- a/EBIgene2phenotype/smartapi.yaml +++ b/EBIgene2phenotype/smartapi.yaml @@ -15,7 +15,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.0.3" servers: - description: Encrypted Production server url: https://biothings.ncats.io/ebigene2phenotype diff --git a/MGIgene2phenotype/smartapi.yaml b/MGIgene2phenotype/smartapi.yaml index 59f306db..e82c132b 100644 --- a/MGIgene2phenotype/smartapi.yaml +++ b/MGIgene2phenotype/smartapi.yaml @@ -15,7 +15,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.0.3" servers: - description: Encrypted Production server url: https://biothings.ncats.io/mgigene2phenotype diff --git a/bindingdb/smartapi.yaml b/bindingdb/smartapi.yaml index c517b565..6a3df009 100644 --- a/bindingdb/smartapi.yaml +++ b/bindingdb/smartapi.yaml @@ -15,7 +15,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.4.8" + biolink-version: "3.0.3" servers: - description: Encrypted Production server url: https://biothings.ncats.io/bindingdb diff --git a/biolink/openapi.yml b/biolink/openapi.yml index 5e0bef74..ef547da3 100644 --- a/biolink/openapi.yml +++ b/biolink/openapi.yml @@ -1,4 +1,4 @@ -openapi: 3.0.0 +openapi: 3.0.3 info: contact: email: cjm@berkeleybop.org @@ -15,7 +15,7 @@ info: team: - "Service Provider" - "Standards Reference Implementation Team" - biolink-version: "2.2.13" + biolink-version: "3.0.3" servers: - description: Production server url: https://api.monarchinitiative.org/api diff --git a/bioplanet/bioplanet-pathway-disease.yaml b/bioplanet/bioplanet-pathway-disease.yaml index f88574cd..d9507077 100644 --- a/bioplanet/bioplanet-pathway-disease.yaml +++ b/bioplanet/bioplanet-pathway-disease.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.0.3" servers: - description: Encrypted Production server url: https://biothings.ncats.io/bioplanet_pathway_disease diff --git a/bioplanet/bioplanet-pathway-gene.yaml b/bioplanet/bioplanet-pathway-gene.yaml index 883b73df..91bc6766 100644 --- a/bioplanet/bioplanet-pathway-gene.yaml +++ b/bioplanet/bioplanet-pathway-gene.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.0.3" servers: - description: Encrypted Production server url: https://biothings.ncats.io/bioplanet_pathway_gene diff --git a/biothings_explorer/service-provider-trapi.yaml b/biothings_explorer/service-provider-trapi.yaml index d2cc211f..e1092762 100644 --- a/biothings_explorer/service-provider-trapi.yaml +++ b/biothings_explorer/service-provider-trapi.yaml @@ -29,7 +29,7 @@ info: test_data_location: "https://raw.githubusercontent.com/NCATS-Tangerine/translator-api-registry/master/biothings_explorer/sri-test-service-provider.json" x-translator: infores: "infores:service-provider-trapi" - biolink-version: 2.4.8 + biolink-version: "3.0.3" component: KP team: - Service Provider diff --git a/biothings_explorer/service-provider-trapi_temp13.yaml b/biothings_explorer/service-provider-trapi_temp13.yaml deleted file mode 100644 index 15855438..00000000 --- a/biothings_explorer/service-provider-trapi_temp13.yaml +++ /dev/null @@ -1,1285 +0,0 @@ -openapi: 3.0.3 -## made this document by copying https://github.com/NCATS-Tangerine/translator-api-registry/blob/master/biothings_explorer/smartapi.yaml -## section-by-section and adjusting when needed -info: - contact: - email: cwu@scripps.edu - name: Chunlei Wu - x-id: https://github.com/newgene - x-role: responsible developer - description: >- - Separate registration for the BTE's Service-Provider-specific endpoints. This allows others - use BTE as a TRAPI service/interface to query all of the non-TRAPI APIs that Service Provider ingests - through x-bte annotation. - termsOfService: https://biothings.io/about - title: Service Provider TRAPI (v1.3) - version: 2.8.1 - x-trapi: - version: 1.3.0 - asyncquery: true - operations: - ## look at https://standards.ncats.io/operation.json for details. was previously lookup - - lookup_and_score - ## no batch_size_limit (BTE manages IDs for QNodes and sub-queries internally) - rate_limit: 15 - ## /query endpoints have a limit of 15 requests/client/min - ## /meta_knowledge_graph endpoints have a limit of 30 requests/client/min - ## other endpoints don't have rate limits - x-translator: - infores: "infores:service-provider-trapi" - biolink-version: 2.4.8 - component: KP - team: - - Service Provider -servers: -- url: https://api.bte.ncats.io/v1/team/Service%20Provider - description: Non-ITRB dev (primary internal use) - x-maturity: development -tags: -- name: 1.3.0 -- name: meta_knowledge_graph -- name: query -- name: asyncquery -- name: translator -- name: trapi -- name: biothings -## Note: BTE has custom behavior so DO NOT blindly copy-paste the TRAPI specs / schemas into the document below -## instead go through it and copy-paste in sections as-needed -## examples are using MyVariant-specific query -paths: - ## copied from BTE's /meta_knowledge_graph and modified summary/description - /meta_knowledge_graph: - get: - tags: - - meta_knowledge_graph - summary: TRAPI-compliant meta-knowledge-graph representation for Service Provider's SmartAPI KP APIs (that have x-bte annotation) - responses: - '200': - description: >- - Returns a TRAPI-compliant meta-knowledge-graph representation for Service Provider's SmartAPI KP APIs (that have x-bte annotation) - content: - application/json: - schema: - $ref: '#/components/schemas/MetaKnowledgeGraph' - ## copied from BTE's /query and modified summary - /query: - post: - tags: - - query - summary: Query Service Provider's SMARTAPI KP APIs (that have x-bte annotation) as an individual TRAPI service - parameters: - - description: option to choose whether or not to enable caching - in: query - name: caching - required: false - schema: - type: boolean - - description: dryrun a query (logs the queries BTE will make) - in: query - name: dryrun - required: false - schema: - type: boolean - requestBody: - description: Query information to be submitted - required: true - content: - application/json: - schema: - $ref: '#/components/schemas/Query' - ## should use MyVariant to answer this - example: - message: - query_graph: - nodes: - n0: - ids: - - "DBSNP:rs121913521" - categories: - - "biolink:SequenceVariant" - n1: - categories: - - "biolink:Disease" - edges: - e1: - subject: "n0" - object: "n1" - responses: - '200': - description: >- - OK. There may or may not be results. Note that some of the provided - identifiers may not have been recognized. - content: - application/json: - schema: - $ref: '#/components/schemas/Response' - '400': - description: >- - Bad request. The request is invalid according to this OpenAPI - schema OR a specific identifier is believed to be invalid somehow - (not just unrecognized). - content: - application/json: - schema: - type: string - '413': - description: >- - Payload too large. Indicates that batch size was over the limit - specified in x-trapi. - content: - application/json: - schema: - type: string - '429': - description: >- - Too many requests. Indicates that the client issued requests that - exceed the rate limit specified in x-trapi. - content: - application/json: - schema: - type: string - '500': - description: >- - Internal server error. - content: - application/json: - schema: - type: string - '501': - description: >- - Not implemented. - content: - application/json: - schema: - type: string - ## need to remove the extra stuff from server url to use this endpoint.. - ## example: https://api.bte.ncats.io/check_query_status/{id} - ## not TRAPI spec: BTE-specific endpoint related to asyncquery - # /check_query_status/{id}: - # ## moved because smartapi-editor gave alert that a non-existent post endpoint wouldn't know what {id} is - # parameters: - # - description: job-id - # in: path - # name: id - # required: true - # ## Cache refreshing means this will be changing pretty often, so not including an example - # schema: - # type: string - # get: - # tags: - # - asyncquery - # summary: >- - # This endpoint should be used when a Query was sent to BTE through an /asyncquery - # endpoint without a callback property: BTE then handled it in a polling manner and - # provided a job id. The job id can be used here to check the status or retrieve - # the Response. - # parameters: - # - description: option to override original query log level - # in: query - # name: log_level - # required: false - # schema: - # type: string - # description: >- - # Logging level. The order of priority is ERROR, WARNING, INFO, DEBUG. BTE will return all logs at the - # specified level and those at higher priority levels - # enum: - # - ERROR - # - WARNING - # - INFO - # - DEBUG - # responses: - # '200': - # description: Returns status. If successfully completed, it will return a TRAPI Response object under the field returnvalue - # content: - # application/json: - # schema: - # type: object - # required: - # - id - # - state - # properties: - # id: - # description: the job-id - # type: string - # state: - # description: the status of the job - # reason: - # description: when the state is 'failed', this field states a reason for the failure - # type: string - # returnvalue: - # ## returnvalue.response is where the TRAPI Response is - # description: >- - # When the state is 'completed', this will contain the TRAPI Response object. Note - # that BTE might return an error, no results, etc as a Response... - # type: object - # properties: - # response: - # $ref: '#/components/schemas/Response' - ## copied from BTE's /asyncquery and modified summary - /asyncquery: - post: - tags: - - asyncquery - summary: >- - This endpoint is for asynchronously querying Service Provider's SMARTAPI KP APIs (that have x-bte annotation) - as an individual TRAPI service. - - Initiate a query that will be handled in an asynchronous manner (there is a - queue and queries will be executed in the order that they enter the queue). - For BTE, it is optional to have a callback property in the request-body. If - the callback property is not included, BTE will handle the query in a polling - manner: it will provide a job-id that can be used to check the status or retrieve - the Response using BTE's /v1/check_query_status/{id} endpoint. - parameters: - - description: option to choose whether or not to enable caching - in: query - name: caching - required: false - schema: - type: boolean - - description: dryrun a query (logs the queries BTE will make) - in: query - name: dryrun - required: false - schema: - type: boolean - requestBody: - description: Query information to be submitted - required: true - content: - application/json: - schema: - $ref: '#/components/schemas/AsyncQuery' - ## should use MyVariant to answer this - example: - message: - query_graph: - nodes: - n0: - ids: - - "DBSNP:rs121913521" - categories: - - "biolink:SequenceVariant" - n1: - categories: - - "biolink:Disease" - edges: - e1: - subject: "n0" - object: "n1" - responses: - '200': - description: >- - The query is accepted for processing. The behavior will depend on whether - the callback property is included. If the callback property is included, - the Response will be sent to the callback url when complete. If the callback - property is not included, BTE will handle the query in a polling manner: it - will provide a job-id that can be used to check the status or retrieve - the Response using BTE's /v1/check_query_status/{id} endpoint. - content: - application/json: - schema: - type: string - '400': - description: >- - Bad request. The request is invalid according to this OpenAPI - schema OR a specific identifier is believed to be invalid somehow - (not just unrecognized). - content: - application/json: - schema: - type: string - '413': - description: >- - Payload too large. Indicates that batch size was over the limit - specified in x-trapi. - content: - application/json: - schema: - type: string - '429': - description: >- - Too many requests. Indicates that the client issued requests that - exceed the rate limit specified in x-trapi. - content: - application/json: - schema: - type: string - '500': - description: >- - Internal server error. - content: - application/json: - schema: - type: string - '501': - description: >- - Not implemented. - content: - application/json: - schema: - type: string -components: - ## look for comments to see parts that have been modified for BTE - ## - Query: comment out workflow.allOf section since the $ref breaks execution of - ## BTE's api-schema-builder/openapi-validator-middleware - ## - AsyncQuery: callback property not required (commented it out of the 'required' field), - ## comment out workflow.allOf section - ## - Response: comment out workflow.allOf section - ## - QEdge: set additionalProperties to false (see comments below for details) - ## - Attribute: comment out properties.attributes.items since the self-$ref breaks execution of - ## BTE's api-schema-builder/openapi-validator-middleware - schemas: - Query: - description: >- - The Query class is used to package a user request for information. A - Query object consists of a required Message object with optional - additional properties. Additional properties are intended to convey - implementation-specific or query-independent parameters. For example, - an additional property specifying a log level could allow a user to - override the default log level in order to receive more fine-grained - log information when debugging an issue. - x-body-name: request_body - type: object - properties: - message: - $ref: '#/components/schemas/Message' - description: >- - The query Message is a serialization of the user request. Content - of the Message object depends on the intended TRAPI operation. For - example, the fill operation requires a non-empty query_graph field - as part of the Message, whereas other operations, e.g. overlay, - require non-empty results and knowledge_graph fields. - log_level: - description: The least critical level of logs to return - allOf: - - $ref: '#/components/schemas/LogLevel' - nullable: true - workflow: - description: List of workflow steps to be executed. - # allOf: - # - $ref: http://standards.ncats.io/workflow/1.0.0/schema - nullable: true - submitter: - type: string - description: >- - Any string for self-identifying the submitter of a query. The - purpose of this optional field is to aid in the tracking of - the source of queries for development and issue resolution. - nullable: true - additionalProperties: true - required: - - message - AsyncQuery: - description: >- - The AsyncQuery class is effectively the same as the Query class but - it requires a callback property. - x-body-name: request_body - type: object - properties: - callback: - type: string - format: uri - pattern: ^https?:// - description: >- - Upon completion, this server will send a POST request to the - callback URL with `Content-Type: application/json` header and - request body containing a JSON-encoded `Response` object. - The server MAY POST `Response` objects before work is fully - complete to provide interim results with a Response.status - value of 'Running'. If a POST operation to the callback URL - does not succeed, the server SHOULD retry the POST at least - once. - message: - $ref: '#/components/schemas/Message' - description: >- - The query Message is a serialization of the user request. Content - of the Message object depends on the intended TRAPI operation. For - example, the fill operation requires a non-empty query_graph field - as part of the Message, whereas other operations, e.g. overlay, - require non-empty results and knowledge_graph fields. - log_level: - description: The least critical level of logs to return - allOf: - - $ref: '#/components/schemas/LogLevel' - nullable: true - workflow: - description: List of workflow steps to be executed. - # allOf: - # - $ref: http://standards.ncats.io/workflow/1.0.0/schema - nullable: true - submitter: - type: string - description: >- - Any string for self-identifying the submitter of a query. The - purpose of this optional field is to aid in the tracking of - the source of queries for development and issue resolution. - nullable: true - additionalProperties: true - required: - ## BTE does not require the callback property, see the asyncquery - ## endpoint summary and 200 response description - # - callback - - message - Response: - type: object - description: >- - The Response object contains the main payload when a TRAPI query - endpoint interprets and responds to the submitted query successfully - (i.e., HTTP Status Code 200). The message property contains the - knowledge of the response (query graph, knowledge graph, and results). - The status, description, and logs properties provide additional details - about the response. - properties: - message: - description: >- - Contains the knowledge of the response (query graph, knowledge - graph, and results). - $ref: '#/components/schemas/Message' - status: - description: >- - One of a standardized set of short codes, - e.g. Success, QueryNotTraversable, KPsNotAvailable - type: string - example: Success - nullable: true - description: - description: A brief human-readable description of the outcome - type: string - example: Success. 42 results found. - nullable: true - logs: - description: >- - Log entries containing errors, warnings, debugging information, etc - type: array - items: - $ref: '#/components/schemas/LogEntry' - nullable: true - workflow: - description: List of workflow steps that were executed. - # allOf: - # - $ref: http://standards.ncats.io/workflow/1.0.0/schema - nullable: true - additionalProperties: true - required: - - message - Message: - description: >- - The message object holds the main content of a Query or a Response in - three properties: query_graph, results, and knowledge_graph. - The query_graph property contains the query configuration, the results - property contains any answers that are returned by the service, - and knowledge_graph property contains lists of edges and nodes in the - thought graph corresponding to this message. The content of these - properties is context-dependent to the encompassing object and - the TRAPI operation requested. - type: object - properties: - results: - description: >- - List of all returned Result objects for the query posed. - The list SHOULD NOT be assumed to be ordered. The 'score' property, - if present, MAY be used to infer result rankings. - type: array - items: - $ref: '#/components/schemas/Result' - nullable: true - query_graph: - description: >- - QueryGraph object that contains a serialization of a query in the - form of a graph - allOf: - - $ref: '#/components/schemas/QueryGraph' - nullable: true - knowledge_graph: - description: >- - KnowledgeGraph object that contains lists of nodes and edges - in the thought graph corresponding to the message - allOf: - - $ref: '#/components/schemas/KnowledgeGraph' - nullable: true - additionalProperties: false - LogEntry: - description: >- - The LogEntry object contains information useful for tracing - and debugging across Translator components. Although an - individual component (for example, an ARA or KP) may have its - own logging and debugging infrastructure, this internal - information is not, in general, available to other components. - In addition to a timestamp and logging level, LogEntry - includes a string intended to be read by a human, along with - one of a standardized set of codes describing the condition of - the component sending the message. - type: object - properties: - timestamp: - type: string - format: date-time - description: Timestamp in ISO 8601 format - example: '2020-09-03T18:13:49+00:00' - nullable: true - level: - allOf: - - $ref: '#/components/schemas/LogLevel' - nullable: true - code: - type: string - description: >- - One of a standardized set of short codes - e.g. QueryNotTraversable, KPNotAvailable, KPResponseMalformed - nullable: true - message: - type: string - description: A human-readable log message - nullable: true - additionalProperties: true - LogLevel: - type: string - description: Logging level - enum: - - ERROR - - WARNING - - INFO - - DEBUG - Result: - type: object - description: >- - A Result object specifies the nodes and edges in the knowledge graph - that satisfy the structure or conditions of a user-submitted query - graph. It must contain a NodeBindings object (list of query graph node - to knowledge graph node mappings) and an EdgeBindings object (list of - query graph edge to knowledge graph edge mappings). - properties: - node_bindings: - type: object - description: >- - The dictionary of Input Query Graph to Result Knowledge Graph node - bindings where the dictionary keys are the key identifiers of the - Query Graph nodes and the associated values of those keys are - instances of NodeBinding schema type (see below). This value is an - array of NodeBindings since a given query node may have multiple - knowledge graph Node bindings in the result. - additionalProperties: - type: array - items: - $ref: '#/components/schemas/NodeBinding' - edge_bindings: - type: object - description: >- - The dictionary of Input Query Graph to Result Knowledge Graph edge - bindings where the dictionary keys are the key identifiers of the - Query Graph edges and the associated values of those keys are - instances of EdgeBinding schema type (see below). This value is an - array of EdgeBindings since a given query edge may resolve to - multiple knowledge graph edges in the result. - additionalProperties: - type: array - items: - $ref: '#/components/schemas/EdgeBinding' - score: - type: number - format: float - example: 163.233 - description: >- - A numerical score associated with this result indicating the - relevance or confidence of this result relative to others in the - returned set. Higher MUST be better. - nullable: true - additionalProperties: true - required: - - node_bindings - - edge_bindings - NodeBinding: - type: object - description: >- - An instance of NodeBinding is a single KnowledgeGraph Node mapping, - identified by the corresponding 'id' object key identifier of the - Node within the Knowledge Graph. Instances of NodeBinding may - include extra annotation in the form of additional properties. - (such annotation is not yet fully standardized). - properties: - id: - $ref: '#/components/schemas/CURIE' - description: >- - The CURIE of a Node within the Knowledge Graph. - query_id: - $ref: '#/components/schemas/CURIE' - description: >- - An optional property to provide the CURIE in the QueryGraph to - which this binding applies. If the bound QNode does not have an - an 'id' property or if it is empty, then this query_id MUST be - null or absent. If the bound QNode has one or more CURIEs - as an 'id' and this NodeBinding's 'id' refers to a QNode 'id' - in a manner where the CURIEs are different (typically due to - the NodeBinding.id being a descendant of a QNode.id), then - this query_id MUST be provided. In other cases, there is no - ambiguity, and this query_id SHOULD NOT be provided. - attributes: - type: array - description: >- - A list of attributes providing further information about the - node binding. This is not intended for capturing node attributes - and should only be used for properties that vary from result to - result. - items: - $ref: '#/components/schemas/Attribute' - nullable: true - additionalProperties: true - required: - - id - EdgeBinding: - type: object - description: >- - A instance of EdgeBinding is a single KnowledgeGraph Edge mapping, - identified by the corresponding 'id' object key identifier of the - Edge within the Knowledge Graph. Instances of EdgeBinding may include - extra annotation (such annotation is not yet fully standardized). - properties: - id: - type: string - description: The key identifier of a specific KnowledgeGraph Edge. - attributes: - type: array - description: >- - A list of attributes providing further information about the - edge binding. This is not intended for capturing edge attributes - and should only be used for properties that vary from result to - result. - items: - $ref: '#/components/schemas/Attribute' - nullable: true - additionalProperties: true - required: - - id - KnowledgeGraph: - type: object - description: >- - The knowledge graph associated with a set of results. The instances - of Node and Edge defining this graph represent instances of - biolink:NamedThing (concept nodes) and biolink:Association - (relationship edges) representing (Attribute) annotated knowledge - returned from the knowledge sources and inference agents wrapped by - the given TRAPI implementation. - properties: - nodes: - type: object - description: >- - Dictionary of Node instances used in the KnowledgeGraph, - referenced elsewhere in the TRAPI output by the dictionary key. - additionalProperties: - $ref: '#/components/schemas/Node' - edges: - type: object - description: >- - Dictionary of Edge instances used in the KnowledgeGraph, - referenced elsewhere in the TRAPI output by the dictionary key. - additionalProperties: - $ref: '#/components/schemas/Edge' - additionalProperties: true - required: - - nodes - - edges - QueryGraph: - type: object - description: >- - A graph representing a biomedical question. It serves as a template for - each result (answer), where each bound knowledge graph node/edge is - expected to obey the constraints of the associated query graph element. - properties: - nodes: - type: object - description: >- - The node specifications. The keys of this map are unique node - identifiers and the corresponding values include the constraints - on bound nodes. - additionalProperties: - $ref: '#/components/schemas/QNode' - edges: - type: object - description: >- - The edge specifications. The keys of this map are unique edge - identifiers and the corresponding values include the constraints - on bound edges, in addition to specifying the subject and object - QNodes. - additionalProperties: - $ref: '#/components/schemas/QEdge' - additionalProperties: true - required: - - nodes - - edges - QNode: - type: object - description: A node in the QueryGraph used to represent an entity in a - query. If a CURIE is not specified, any nodes matching the category - of the QNode will be returned in the Results. - properties: - ids: - type: array - items: - $ref: '#/components/schemas/CURIE' - minItems: 1 - example: [OMIM:603903] - description: CURIE identifier for this node - nullable: true - categories: - type: array - items: - $ref: '#/components/schemas/BiolinkEntity' - minItems: 1 - nullable: true - is_set: - type: boolean - description: >- - Boolean that if set to true, indicates that this QNode MAY have - multiple KnowledgeGraph Nodes bound to it within each Result. - The nodes in a set should be considered as a set of independent - nodes, rather than a set of dependent nodes, i.e., the answer - would still be valid if the nodes in the set were instead returned - individually. Multiple QNodes may have is_set=True. If a QNode - (n1) with is_set=True is connected to a QNode (n2) with - is_set=False, each n1 must be connected to n2. If a QNode (n1) - with is_set=True is connected to a QNode (n2) with is_set=True, - each n1 must be connected to at least one n2. - default: false - constraints: - type: array - description: >- - A list of contraints applied to a query node. - If there are multiple items, they must all be true (equivalent - to AND) - items: - $ref: '#/components/schemas/AttributeConstraint' - default: [] - additionalProperties: true - QEdge: - type: object - description: >- - An edge in the QueryGraph used as an filter pattern specification in a - query. If the optional predicate property is not specified, - it is assumed to be a wildcard match to the target knowledge space. - If specified, the ontological inheritance hierarchy associated with - the term provided is assumed, such that edge bindings returned may be - an exact match to the given QEdge predicate term, - or to a term that is a descendant of the QEdge predicate term. - properties: - knowledge_type: - description: >- - Indicates the type of knowledge that the client wants from the - server between the subject and object. If the value is - 'lookup', then the client wants direct lookup information from - knowledge sources. If the value is 'inferred', then the client - wants the server to get creative and connect the subject and - object in more speculative and non-direct-lookup ways. If this - property is absent or null, it MUST be assumed to mean - 'lookup'. This feature is currently experimental and may be - further extended in the future. - example: lookup - nullable: true - type: string - predicates: - type: array - items: - $ref: '#/components/schemas/BiolinkPredicate' - minItems: 1 - nullable: true - subject: - type: string - example: https://omim.org/entry/603903 - description: >- - Corresponds to the map key identifier of the - subject concept node anchoring the query filter - pattern for the query relationship edge. - object: - type: string - example: https://www.uniprot.org/uniprot/P00738 - description: >- - Corresponds to the map key identifier of the - object concept node anchoring the query filter - pattern for the query relationship edge. - attribute_constraints: - type: array - description: >- - A list of attribute contraints applied to a query edge. - If there are multiple items, they must all be true (equivalent - to AND) - items: - $ref: '#/components/schemas/AttributeConstraint' - default: [] - qualifier_constraints: - type: array - description: >- - A list of QualifierConstraints that provide nuance to the QEdge. - If multiple QualifierConstraints are provided, there is an OR - relationship between them. If the QEdge has multiple - predicates or if the QNodes that correspond to the subject or - object of this QEdge have multiple categories or multiple - curies, then qualifier_constraints MUST NOT be specified - because these complex use cases are not supported at this time. - items: - $ref: '#/components/schemas/QualifierConstraint' - default: [] - ## changing from true to false, so BTE will reject queries that have these additional properties - ## BTE doesn't use these and this is the easiest way to recognize when they are there and respond to that - ## Related to Implementation rules https://github.com/NCATSTranslator/ReasonerAPI/blob/1.3/ImplementationRules.md#qedgexxxxx - additionalProperties: false - required: - - subject - - object - Node: - type: object - description: >- - A node in the KnowledgeGraph which represents some biomedical - concept. Nodes are identified by the keys in the KnowledgeGraph - Node mapping. - properties: - name: - type: string - example: Haptoglobin - description: Formal name of the entity - nullable: true - categories: - type: array - items: - $ref: '#/components/schemas/BiolinkEntity' - nullable: true - attributes: - type: array - description: A list of attributes describing the node - items: - $ref: '#/components/schemas/Attribute' - nullable: true - additionalProperties: false - Attribute: - type: object - description: >- - Generic attribute for a node or an edge that expands the key-value - pair concept by including fields for additional metadata. These fields - can be used to describe the source of the statement made in a key-value - pair of the attribute object, or describe the attribute's value itself - including its semantic type, or a url providing additional information - about it. An attribute may be further qualified with sub-attributes - (for example to provide confidence intervals on a value). - properties: - attribute_type_id: - $ref: '#/components/schemas/CURIE' - description: >- - The 'key' of the attribute object, holding a CURIE of an ontology - property defining the attribute (preferably the CURIE of a - Biolink association slot). This property captures the relationship - asserted to hold between the value of the attribute, and the node - or edge from which it hangs. For example, that a value of - '0.000153' represents a p-value supporting an edge, or that - a value of 'ChEMBL' represents the original source of the knowledge - expressed in the edge. - example: biolink:synonym - original_attribute_name: - type: string - description: >- - The term used by the original source of an attribute to describe - the meaning or significance of the value it captures. This may be - a column name in a source tsv file, or a key in a source json - document for the field in the data that held the attribute's - value. Capturing this information where possible lets us preserve - what the original source said. Note that the data type is string' - but the contents of the field could also be a CURIE of a third - party ontology term. - example: p-value - nullable: true - value: - description: >- - Value of the attribute. May be any data type, including a list. - example: 0.000153 - value_type_id: - allOf: - - $ref: '#/components/schemas/CURIE' - description: >- - CURIE describing the semantic type of an attribute's value. Use - a Biolink class if possible, otherwise a term from an external - ontology. If a suitable CURIE/identifier does not exist, enter a - descriptive phrase here and submit the new type for consideration - by the appropriate authority. - example: EDAM:data_1187 - nullable: true - attribute_source: - type: string - description: >- - The source of the core assertion made by the key-value pair of an - attribute object. Use a CURIE or namespace designator for this - resource where possible. - example: UniProtKB - nullable: true - value_url: - type: string - description: >- - Human-consumable URL linking to a web document that provides - additional information about an attribute's value (not the node - or the edge fom which it hangs). - example: https://pubmed.ncbi.nlm.nih.gov/32529952 - nullable: true - description: - type: string - description: >- - Human-readable description for the attribute and its value. - example: Assertion Authored By Dr. Trans L. Ator - nullable: true - attributes: - type: array - description: >- - A list of attributes providing further information about the - parent attribute (for example to provide provenance - information about the parent attribute). - # items: - # $ref: '#/components/schemas/Attribute' - nullable: true - required: - - attribute_type_id - - value - additionalProperties: false - Edge: - type: object - description: >- - A specification of the semantic relationship linking two concepts - that are expressed as nodes in the knowledge "thought" graph - resulting from a query upon the underlying knowledge source. - properties: - predicate: - allOf: - - $ref: '#/components/schemas/BiolinkPredicate' - nullable: true - subject: - $ref: '#/components/schemas/CURIE' - example: OMIM:603903 - description: >- - Corresponds to the map key CURIE of the - subject concept node of this relationship edge. - object: - $ref: '#/components/schemas/CURIE' - example: UniProtKB:P00738 - description: >- - Corresponds to the map key CURIE of the - object concept node of this relationship edge. - attributes: - type: array - description: A list of additional attributes for this edge - items: - $ref: '#/components/schemas/Attribute' - nullable: true - qualifiers: - type: array - description: >- - A set of Qualifiers that act together to add nuance - or detail to the statement expressed in an Edge. - items: - $ref: '#/components/schemas/Qualifier' - nullable: true - additionalProperties: false - required: - - subject - - object - Qualifier: - additionalProperties: false - description: >- - An additional nuance attached to an assertion - type: object - properties: - qualifier_type_id: - type: string - description: >- - The category of the qualifier, drawn from a hierarchy of qualifier - slots in the Biolink model (e.g. subject_aspect, subject_direction, - object_aspect, object_direction, etc). - example: subject_aspect - nullable: false - qualifier_value: - type: string - description: >- - The value associated with the type of the qualifier, drawn from - a set of controlled values by the type as specified in - the Biolink model (e.g. 'expression' or 'abundance' for the - qualifier type 'subject_aspect', etc). - example: expression - nullable: false - required: - - qualifier_type_id - - qualifier_value - QualifierConstraint: - additionalProperties: false - description: >- - Defines a query constraint based on the - qualifier_types and qualifier_values of a set of - Qualifiers attached to an edge. For example, it can constrain a - "ChemicalX - affects - ?Gene" query to return only edges where - ChemicalX specifically affects the 'expression' of the Gene, - by constraining on the qualifier_type "object_aspect" with - a qualifier_value of "expression". - properties: - qualifier_set: - type: array - description: >- - A set of Qualifiers that serves to add nuance to a query, - by constraining allowed values held by Qualifiers - on queried Edges. - items: - $ref: '#/components/schemas/Qualifier' - nullable: false - required: - - qualifier_set - type: object - BiolinkEntity: - description: >- - Compact URI (CURIE) for a Biolink class, biolink:NamedThing - or a child thereof. The CURIE must use the prefix 'biolink:' - followed by the PascalCase class name. - type: string - pattern: ^biolink:[A-Z][a-zA-Z]*$ - externalDocs: - description: Biolink model entities - url: https://biolink.github.io/biolink-model/docs/NamedThing.html - example: biolink:PhenotypicFeature - BiolinkPredicate: - description: >- - CURIE for a Biolink 'predicate' slot, taken from the Biolink slot - ('is_a') hierarchy rooted in biolink:related_to (snake_case). This - predicate defines the Biolink relationship between the subject and - object nodes of a biolink:Association defining a knowledge graph edge. - type: string - pattern: ^biolink:[a-z][a-z_]*$ - externalDocs: - description: Biolink model predicates - url: https://biolink.github.io/biolink-model/docs/related_to.html - example: biolink:interacts_with - CURIE: - type: string - description: >- - A Compact URI, consisting of a prefix and a reference separated - by a colon, such as UniProtKB:P00738. Via an external context - definition, the CURIE prefix and colon may be replaced by a URI - prefix, such as http://identifiers.org/uniprot/, to form a full - URI. - externalDocs: - url: https://www.w3.org/TR/2010/NOTE-curie-20101216/ - MetaKnowledgeGraph: - type: object - description: >- - Knowledge-map representation of this TRAPI web service. The meta - knowledge graph is composed of the union of most specific categories - and predicates for each node and edge. - properties: - nodes: - type: object - description: >- - Collection of the most specific node categories provided by - this TRAPI web service, indexed by Biolink class CURIEs. - A node category is only exposed here if there is - node for which that is the most specific category available. - additionalProperties: - $ref: '#/components/schemas/MetaNode' - edges: - type: array - description: >- - List of the most specific edges/predicates provided by this TRAPI - web service. A predicate is only exposed here if there is an edge - for which the predicate is the most specific available. - items: - $ref: '#/components/schemas/MetaEdge' - required: - - nodes - - edges - MetaNode: - type: object - description: >- - Description of a node category provided by this TRAPI web service. - properties: - id_prefixes: - type: array - description: >- - List of CURIE prefixes for the node category that this TRAPI web - service understands and accepts on the input. - items: - type: string - minItems: 1 - example: [CHEMBL.COMPOUND, INCHIKEY] - attributes: - type: array - description: >- - Node attributes provided by this TRAPI web service. - items: - $ref: '#/components/schemas/MetaAttribute' - nullable: true - required: - - id_prefixes - additionalProperties: false - MetaEdge: - type: object - description: >- - Edge in a meta knowledge map describing relationship between a subject - Biolink class and an object Biolink class. - properties: - subject: - $ref: '#/components/schemas/BiolinkEntity' - description: >- - Subject node category of this relationship edge. - example: biolink:ChemicalEntity - predicate: - $ref: '#/components/schemas/BiolinkPredicate' - description: >- - Biolink relationship between the subject and object categories. - example: biolink:affects - object: - $ref: '#/components/schemas/BiolinkEntity' - description: >- - Object node category of this relationship edge. - example: biolink:Protein - knowledge_types: - description: >- - A list of knowledge_types that are supported by the service. - If the knowledge_types is null, this means that only 'lookup' - is supported. Currently allowed values are 'lookup' or 'inferred'. - items: - type: string - minItems: 1 - nullable: true - type: array - attributes: - type: array - description: >- - Edge attributes provided by this TRAPI web service. - items: - $ref: '#/components/schemas/MetaAttribute' - nullable: true - required: - - subject - - predicate - - object - additionalProperties: false - MetaAttribute: - type: object - properties: - attribute_type_id: - $ref: '#/components/schemas/CURIE' - description: >- - Type of an attribute provided by this TRAPI web service - (preferably the CURIE of a Biolink association slot) - example: biolink:p_value - attribute_source: - type: string - description: >- - Source of an attribute provided by this TRAPI web service. - example: infores:chembl - nullable: true - original_attribute_names: - type: array - items: - type: string - description: >- - Names of an the attribute as provided by the source. - nullable: true - minItems: 1 - constraint_use: - type: boolean - description: >- - Indicates whether this attribute can be used as a query - constraint. - default: false - constraint_name: - type: string - description: >- - Human-readable name or label for the constraint concept. - Required whenever constraint_use is true. - example: p-value - nullable: true - required: - - attribute_type_id - AttributeConstraint: - type: object - description: >- - Generic query constraint for a query node or query edge - properties: - id: - allOf: - - $ref: '#/components/schemas/CURIE' - description: >- - CURIE of the concept being constrained. For properties - defined by the Biolink model this SHOULD be a biolink CURIE. - otherwise, if possible, from the EDAM ontology. If a suitable - CURIE does not exist, enter a descriptive phrase here and - submit the new type for consideration by the appropriate - authority. - example: EDAM:data_0844 - name: - type: string - description: >- - Human-readable name or label for the constraint concept. - If appropriate, it SHOULD be the term name of the CURIE used - as the 'id'. This is redundant but required for human - readability. - example: molecular mass - not: - type: boolean - default: false - operator: - type: string - description: >- - Relationship between the database value and the constraint value - for the specified id. The operators ==, >, and < mean - is equal to, is greater than, and is less than, - respectively. The 'matches' operator indicates that the value - is a regular expression to be evaluated. If value is a list type, - then at least one evaluation must be true (equivalent to OR). - This means that the == operator with a list acts like a SQL 'IN' - clause. If the value of the compared attribute is a list, then - comparisons are performed between each of the constraint values - and each of the attribute values, and any one true evaluation - counts as an overall true (e.g., [1,2,3] == [6,7,2] is true). - The == operator is therefore a broad interpretation of inclusion. - The '===' operator requires that the constraint value and - the attribute value be the same data type, length, - content, and order (e.g. only [1,2,3] === [1,2,3]). - The 'not' property negates the operator such that not - and == means 'not equal to' (or 'not in' for a list), and not > - means <=, and not < means >=, not matches means does not - match, and not === means the match between the constraint - and attribute values are not exact. - The '==' operator SHOULD NOT be used in a manner that - describes an "is a" subclass relationship for the parent QNode. - enum: - - == - - '>' - - < - - matches - - === - value: - example: 57.0 - description: >- - Value of the attribute. May be any data type, including a list. - If the value is a list and there are multiple items, at least one - comparison must be true (equivalent to OR) unless the '===' - operator is used. If 'value' is of data - type 'object', the keys of the object MAY be treated as a list. - A 'list' data type paired with the '>' or '<' operators will - encode extraneous comparisons, but this is permitted as it is in - SQL and other languages. - unit_id: - example: UO:0000222 - description: >- - CURIE of the units of the value or list of values in the 'value' - property. The Units of Measurement Ontology (UO) should be used - if possible. The unit_id MUST be provided for (lists of) - numerical values that correspond to a quantity that has units. - nullable: true - unit_name: - example: kilodalton - description: >- - Term name that is associated with the CURIE of the units - of the value or list of values in the 'value' - property. The Units of Measurement Ontology (UO) SHOULD be used - if possible. This property SHOULD be provided if a unit_id is - provided. This is redundant but recommended for human readability. - nullable: true - required: - - name - - id - - operator - - value - additionalProperties: false diff --git a/biothings_explorer/smartapi.yaml b/biothings_explorer/smartapi.yaml index cc45f91b..a6befaf9 100644 --- a/biothings_explorer/smartapi.yaml +++ b/biothings_explorer/smartapi.yaml @@ -23,7 +23,7 @@ info: ## test_data_location not included for now x-translator: infores: "infores:biothings-explorer" - biolink-version: 2.4.8 + biolink-version: "3.0.3" component: ARA team: - Exploring Agent diff --git a/biothings_explorer/smartapi_temp13.yaml b/biothings_explorer/smartapi_temp13.yaml deleted file mode 100644 index cd6a0a3b..00000000 --- a/biothings_explorer/smartapi_temp13.yaml +++ /dev/null @@ -1,1777 +0,0 @@ -openapi: 3.0.3 -info: - contact: - email: asu@scripps.edu - name: Andrew Su - url: https://github.com/andrewsu - description: A TRAPI/Reasoner Standard API for BioThings Explorer (BTE) - termsOfService: https://biothings.io/about - title: BioThings Explorer (BTE) TRAPI (v1.3) - version: 2.8.1 - x-trapi: - version: 1.3.0 - asyncquery: true - operations: - ## look at https://standards.ncats.io/operation.json for details. was previously lookup - - lookup_and_score - ## no batch_size_limit (BTE manages IDs for QNodes and sub-queries internally) - rate_limit: 15 - ## /query endpoints have a limit of 15 requests/client/min - ## /meta_knowledge_graph endpoints have a limit of 30 requests/client/min - ## other endpoints don't have rate limits - x-translator: - infores: "infores:biothings-explorer" - biolink-version: 2.4.8 - component: ARA - team: - - Exploring Agent -servers: -## ITRB Production and Test are deployed manually, based on the staging instance -## ITRB CI / staging is basically deployed manually, from main branches -## - automatic for updates in bte-trapi-workspace main branch, but those rarely happen -## - we could technically control what branches are used (but right now we don't do this) -## non-ITRB dev: total manual control on updates (what branches of modules are used for updates) -- url: https://api.bte.ncats.io/v1 - description: Non-ITRB dev (primary internal use) - x-maturity: development -tags: -- name: 1.3.0 -- name: meta_knowledge_graph -- name: query -- name: asyncquery -- name: translator -- name: trapi -- name: biothings -## Note: BTE has custom behavior so DO NOT blindly copy-paste the TRAPI specs / schemas into the document below -## instead go through it and copy-paste in sections as-needed -## examples are using MyVariant-specific query -paths: - ## copied directly from TRAPI spec - /meta_knowledge_graph: - get: - tags: - - meta_knowledge_graph - summary: Meta knowledge graph representation of this TRAPI web service. - responses: - '200': - description: >- - Returns meta knowledge graph representation of this TRAPI web - service. - content: - application/json: - schema: - $ref: '#/components/schemas/MetaKnowledgeGraph' - ## copied from /meta_knowledge_graph above and modified: BTE-specific endpoint - /smartapi/{smartapi_id}/meta_knowledge_graph: - get: - tags: - - meta_knowledge_graph - summary: TRAPI-compliant meta-knowledge-graph representation for an individual SmartAPI KP API (that has x-bte annotation) - parameters: - - description: >- - SmartAPI ID of an API with x-bte annotation. The easiest way to find these is to read the list of APIs BTE uses - https://github.com/biothings/BioThings_Explorer_TRAPI/blob/main/src/config/apis.js - in: path - name: smartapi_id - required: true - example: 09c8782d9f4027712e65b95424adba79 ## MyVariant - schema: - type: string - responses: - '200': - description: >- - Returns a TRAPI-compliant meta-knowledge-graph representation for an individual SmartAPI KP API (that has x-bte annotation) - content: - application/json: - schema: - $ref: '#/components/schemas/MetaKnowledgeGraph' - ## copied from /meta_knowledge_graph above and modified: BTE-specific endpoint - /team/{team_name}/meta_knowledge_graph: - get: - tags: - - meta_knowledge_graph - summary: TRAPI-compliant meta-knowledge-graph representation for one KP team's SmartAPI KP APIs (that have x-bte annotation) - parameters: - - description: >- - Translator Team Name. Current options: Service Provider, Multiomics Provider, Text Mining Provider. - The easiest way to find what KP APIs would be included under these teams is to read the list of APIs BTE uses - https://github.com/biothings/BioThings_Explorer_TRAPI/blob/main/src/config/apis.js. - Note that Service Provider endpoints are also advertised separately as a KP - http://smart-api.info/registry?q=36f82f05705c317bac17ddae3a0ea2f0 - in: path - name: team_name - required: true - example: "Service Provider" - schema: - type: string - enum: - - Multiomics Provider - - Text Mining Provider - - Service Provider - responses: - '200': - description: >- - Returns a TRAPI-compliant meta-knowledge-graph representation for one KP team's SmartAPI KP APIs (that have x-bte annotation) - content: - application/json: - schema: - $ref: '#/components/schemas/MetaKnowledgeGraph' - ## modified TRAPI spec: example and BTE-specific parameters, used by developers running local instances of BTE - /query: - post: - tags: - - query - summary: Initiate a TRAPI-format query to BTE (operating as an ARA) and wait to receive a Response - parameters: - - description: option to choose whether or not to enable caching - in: query - name: caching - required: false - schema: - type: boolean - - description: dryrun a query (logs the queries BTE will make) - in: query - name: dryrun - required: false - schema: - type: boolean - requestBody: - description: Query information to be submitted - required: true - content: - application/json: - schema: - $ref: '#/components/schemas/Query' - ## should use MyVariant to answer this - example: - message: - query_graph: - nodes: - n0: - ids: - - "DBSNP:rs121913521" - categories: - - "biolink:SequenceVariant" - n1: - categories: - - "biolink:Disease" - edges: - e1: - subject: "n0" - object: "n1" - responses: - '200': - description: >- - OK. There may or may not be results. Note that some of the provided - identifiers may not have been recognized. - content: - application/json: - schema: - $ref: '#/components/schemas/Response' - '400': - description: >- - Bad request. The request is invalid according to this OpenAPI - schema OR a specific identifier is believed to be invalid somehow - (not just unrecognized). - content: - application/json: - schema: - type: string - '413': - description: >- - Payload too large. Indicates that batch size was over the limit - specified in x-trapi. - content: - application/json: - schema: - type: string - '429': - description: >- - Too many requests. Indicates that the client issued requests that - exceed the rate limit specified in x-trapi. - content: - application/json: - schema: - type: string - '500': - description: >- - Internal server error. - content: - application/json: - schema: - type: string - '501': - description: >- - Not implemented. - content: - application/json: - schema: - type: string - ## copied from /query above and modified: BTE-specific endpoint - /smartapi/{smartapi_id}/query: - post: - tags: - - query - summary: Query individual SmartAPI KP API (that has x-bte annotation) as a TRAPI KP API - parameters: - - description: >- - SmartAPI ID of an API with x-bte annotation. The easiest way to find these is to read the list of APIs BTE uses - https://github.com/biothings/BioThings_Explorer_TRAPI/blob/main/src/config/apis.js - in: path - name: smartapi_id - required: true - example: 09c8782d9f4027712e65b95424adba79 ## MyVariant - schema: - type: string - - description: option to choose whether or not to enable caching - in: query - name: caching - required: false - schema: - type: boolean - - description: dryrun a query (logs the queries BTE will make) - in: query - name: dryrun - required: false - schema: - type: boolean - requestBody: - description: Query information to be submitted - required: true - content: - application/json: - schema: - $ref: '#/components/schemas/Query' - ## should use MyVariant to answer this - example: - message: - query_graph: - nodes: - n0: - ids: - - "DBSNP:rs121913521" - categories: - - "biolink:SequenceVariant" - n1: - categories: - - "biolink:Disease" - edges: - e1: - subject: "n0" - object: "n1" - responses: - '200': - description: >- - OK. There may or may not be results. Note that some of the provided - identifiers may not have been recognized. - content: - application/json: - schema: - $ref: '#/components/schemas/Response' - '400': - description: >- - Bad request. The request is invalid according to this OpenAPI - schema OR a specific identifier is believed to be invalid somehow - (not just unrecognized). - content: - application/json: - schema: - type: string - '413': - description: >- - Payload too large. Indicates that batch size was over the limit - specified in x-trapi. - content: - application/json: - schema: - type: string - '429': - description: >- - Too many requests. Indicates that the client issued requests that - exceed the rate limit specified in x-trapi. - content: - application/json: - schema: - type: string - '500': - description: >- - Internal server error. - content: - application/json: - schema: - type: string - '501': - description: >- - Not implemented. - content: - application/json: - schema: - type: string - ## copied from /query above and modified: BTE-specific endpoint - /team/{team_name}/query: - post: - tags: - - query - summary: >- - Query an individual Translator team's SMARTAPI KP APIs (that have x-bte annotation) as an individual TRAPI - service by specifying the team name - parameters: - - description: >- - Translator Team Name. Current options: Service Provider, Multiomics Provider, Text Mining Provider. - The easiest way to find what KP APIs would be included under these teams is to read the list of APIs BTE uses - https://github.com/biothings/BioThings_Explorer_TRAPI/blob/main/src/config/apis.js. - Note that Service Provider endpoints are also advertised separately as a KP - http://smart-api.info/registry?q=36f82f05705c317bac17ddae3a0ea2f0 - in: path - name: team_name - required: true - example: "Service Provider" - schema: - type: string - enum: - - Multiomics Provider - - Text Mining Provider - - Service Provider - - description: option to choose whether or not to enable caching - in: query - name: caching - required: false - schema: - type: boolean - - description: dryrun a query (logs the queries BTE will make) - in: query - name: dryrun - required: false - schema: - type: boolean - requestBody: - description: Query information to be submitted - required: true - content: - application/json: - schema: - $ref: '#/components/schemas/Query' - ## should use MyVariant to answer this - example: - message: - query_graph: - nodes: - n0: - ids: - - "DBSNP:rs121913521" - categories: - - "biolink:SequenceVariant" - n1: - categories: - - "biolink:Disease" - edges: - e1: - subject: "n0" - object: "n1" - responses: - '200': - description: >- - OK. There may or may not be results. Note that some of the provided - identifiers may not have been recognized. - content: - application/json: - schema: - $ref: '#/components/schemas/Response' - '400': - description: >- - Bad request. The request is invalid according to this OpenAPI - schema OR a specific identifier is believed to be invalid somehow - (not just unrecognized). - content: - application/json: - schema: - type: string - '413': - description: >- - Payload too large. Indicates that batch size was over the limit - specified in x-trapi. - content: - application/json: - schema: - type: string - '429': - description: >- - Too many requests. Indicates that the client issued requests that - exceed the rate limit specified in x-trapi. - content: - application/json: - schema: - type: string - '500': - description: >- - Internal server error. - content: - application/json: - schema: - type: string - '501': - description: >- - Not implemented. - content: - application/json: - schema: - type: string - ## not TRAPI spec: BTE-specific endpoint related to asyncquery - /check_query_status/{id}: - ## moved because smartapi-editor gave alert that a non-existent post endpoint wouldn't know what {id} is - parameters: - - description: job-id - in: path - name: id - required: true - ## Cache refreshing means this will be changing pretty often, so not including an example - schema: - type: string - get: - tags: - - asyncquery - summary: >- - This endpoint should be used when a Query was sent to BTE through an /asyncquery - endpoint without a callback property: BTE then handled it in a polling manner and - provided a job id. The job id can be used here to check the status or retrieve - the Response. - parameters: - - description: option to override original query log level - in: query - name: log_level - required: false - schema: - type: string - description: >- - Logging level. The order of priority is ERROR, WARNING, INFO, DEBUG. BTE will return all logs at the - specified level and those at higher priority levels - enum: - - ERROR - - WARNING - - INFO - - DEBUG - responses: - '200': - description: Returns status. If successfully completed, it will return a TRAPI Response object under the field returnvalue - content: - application/json: - schema: - type: object - required: - - id - - state - properties: - id: - description: the job-id - type: string - state: - description: the status of the job - reason: - description: when the state is 'failed', this field states a reason for the failure - type: string - returnvalue: - ## returnvalue.response is where the TRAPI Response is - description: >- - When the state is 'completed', this will contain the TRAPI Response object. Note - that BTE might return an error, no results, etc as a Response... - type: object - properties: - response: - $ref: '#/components/schemas/Response' - ## modified TRAPI spec: summary sections tell users that AsyncQuery schema was changed to make callback optional - /asyncquery: - post: - tags: - - asyncquery - summary: >- - Initiate a query that will be handled in an asynchronous manner (there is a - queue and queries will be executed in the order that they enter the queue). - For BTE, it is optional to have a callback property in the request-body. If - the callback property is not included, BTE will handle the query in a polling - manner: it will provide a job-id that can be used to check the status or retrieve - the Response using BTE's /v1/check_query_status/{id} endpoint. - parameters: - - description: option to choose whether or not to enable caching - in: query - name: caching - required: false - schema: - type: boolean - - description: dryrun a query (logs the queries BTE will make) - in: query - name: dryrun - required: false - schema: - type: boolean - requestBody: - description: Query information to be submitted - required: true - content: - application/json: - schema: - $ref: '#/components/schemas/AsyncQuery' - ## should use MyVariant to answer this - example: - message: - query_graph: - nodes: - n0: - ids: - - "DBSNP:rs121913521" - categories: - - "biolink:SequenceVariant" - n1: - categories: - - "biolink:Disease" - edges: - e1: - subject: "n0" - object: "n1" - responses: - '200': - description: >- - The query is accepted for processing. The behavior will depend on whether - the callback property is included. If the callback property is included, - the Response will be sent to the callback url when complete. If the callback - property is not included, BTE will handle the query in a polling manner: it - will provide a job-id that can be used to check the status or retrieve - the Response using BTE's /v1/check_query_status/{id} endpoint. - content: - application/json: - schema: - type: string - '400': - description: >- - Bad request. The request is invalid according to this OpenAPI - schema OR a specific identifier is believed to be invalid somehow - (not just unrecognized). - content: - application/json: - schema: - type: string - '413': - description: >- - Payload too large. Indicates that batch size was over the limit - specified in x-trapi. - content: - application/json: - schema: - type: string - '429': - description: >- - Too many requests. Indicates that the client issued requests that - exceed the rate limit specified in x-trapi. - content: - application/json: - schema: - type: string - '500': - description: >- - Internal server error. - content: - application/json: - schema: - type: string - '501': - description: >- - Not implemented. - content: - application/json: - schema: - type: string - ## copied from /asyncquery above and modified: BTE-specific endpoint - /smartapi/{smartapi_id}/asyncquery: - post: - tags: - - asyncquery - summary: >- - This endpoint is for asynchronously querying an individual SmartAPI KP API (that has x-bte annotation) - as a TRAPI KP API. - - Initiate a query that will be handled in an asynchronous manner (there is a - queue and queries will be executed in the order that they enter the queue). - For BTE, it is optional to have a callback property in the request-body. If - the callback property is not included, BTE will handle the query in a polling - manner: it will provide a job-id that can be used to check the status or retrieve - the Response using BTE's /v1/check_query_status/{id} endpoint. - parameters: - - description: >- - SmartAPI ID of an API with x-bte annotation. The easiest way to find these is to read the list of APIs BTE uses - https://github.com/biothings/BioThings_Explorer_TRAPI/blob/main/src/config/apis.js - in: path - name: smartapi_id - required: true - example: 09c8782d9f4027712e65b95424adba79 ## MyVariant - schema: - type: string - - description: option to choose whether or not to enable caching - in: query - name: caching - required: false - schema: - type: boolean - - description: dryrun a query (logs the queries BTE will make) - in: query - name: dryrun - required: false - schema: - type: boolean - requestBody: - description: Query information to be submitted - required: true - content: - application/json: - schema: - $ref: '#/components/schemas/AsyncQuery' - ## should use MyVariant to answer this - example: - message: - query_graph: - nodes: - n0: - ids: - - "DBSNP:rs121913521" - categories: - - "biolink:SequenceVariant" - n1: - categories: - - "biolink:Disease" - edges: - e1: - subject: "n0" - object: "n1" - responses: - '200': - description: >- - The query is accepted for processing. The behavior will depend on whether - the callback property is included. If the callback property is included, - the Response will be sent to the callback url when complete. If the callback - property is not included, BTE will handle the query in a polling manner: it - will provide a job-id that can be used to check the status or retrieve - the Response using BTE's /v1/check_query_status/{id} endpoint. - content: - application/json: - schema: - type: string - '400': - description: >- - Bad request. The request is invalid according to this OpenAPI - schema OR a specific identifier is believed to be invalid somehow - (not just unrecognized). - content: - application/json: - schema: - type: string - '413': - description: >- - Payload too large. Indicates that batch size was over the limit - specified in x-trapi. - content: - application/json: - schema: - type: string - '429': - description: >- - Too many requests. Indicates that the client issued requests that - exceed the rate limit specified in x-trapi. - content: - application/json: - schema: - type: string - '500': - description: >- - Internal server error. - content: - application/json: - schema: - type: string - '501': - description: >- - Not implemented. - content: - application/json: - schema: - type: string - ## copied from /asyncquery above and modified: BTE-specific endpoint - /team/{team_name}/asyncquery: - post: - tags: - - asyncquery - summary: >- - This endpoint is for asynchronously querying an individual Translator team's SMARTAPI KP APIs (that have x-bte annotation) - as an individual TRAPI service by specifying the team name. - - Initiate a query that will be handled in an asynchronous manner (there is a - queue and queries will be executed in the order that they enter the queue). - For BTE, it is optional to have a callback property in the request-body. If - the callback property is not included, BTE will handle the query in a polling - manner: it will provide a job-id that can be used to check the status or retrieve - the Response using BTE's /v1/check_query_status/{id} endpoint. - parameters: - - description: >- - Translator Team Name. Current options: Service Provider, Multiomics Provider, Text Mining Provider. - The easiest way to find what KP APIs would be included under these teams is to read the list of APIs BTE uses - https://github.com/biothings/BioThings_Explorer_TRAPI/blob/main/src/config/apis.js. - Note that Service Provider endpoints are also advertised separately as a KP - http://smart-api.info/registry?q=36f82f05705c317bac17ddae3a0ea2f0 - in: path - name: team_name - required: true - example: "Service Provider" - schema: - type: string - enum: - - Multiomics Provider - - Text Mining Provider - - Service Provider - - description: option to choose whether or not to enable caching - in: query - name: caching - required: false - schema: - type: boolean - - description: dryrun a query (logs the queries BTE will make) - in: query - name: dryrun - required: false - schema: - type: boolean - requestBody: - description: Query information to be submitted - required: true - content: - application/json: - schema: - $ref: '#/components/schemas/AsyncQuery' - ## should use MyVariant to answer this - example: - message: - query_graph: - nodes: - n0: - ids: - - "DBSNP:rs121913521" - categories: - - "biolink:SequenceVariant" - n1: - categories: - - "biolink:Disease" - edges: - e1: - subject: "n0" - object: "n1" - responses: - '200': - description: >- - The query is accepted for processing. The behavior will depend on whether - the callback property is included. If the callback property is included, - the Response will be sent to the callback url when complete. If the callback - property is not included, BTE will handle the query in a polling manner: it - will provide a job-id that can be used to check the status or retrieve - the Response using BTE's /v1/check_query_status/{id} endpoint. - content: - application/json: - schema: - type: string - '400': - description: >- - Bad request. The request is invalid according to this OpenAPI - schema OR a specific identifier is believed to be invalid somehow - (not just unrecognized). - content: - application/json: - schema: - type: string - '413': - description: >- - Payload too large. Indicates that batch size was over the limit - specified in x-trapi. - content: - application/json: - schema: - type: string - '429': - description: >- - Too many requests. Indicates that the client issued requests that - exceed the rate limit specified in x-trapi. - content: - application/json: - schema: - type: string - '500': - description: >- - Internal server error. - content: - application/json: - schema: - type: string - '501': - description: >- - Not implemented. - content: - application/json: - schema: - type: string -components: - ## look for comments to see parts that have been modified for BTE - ## - Query: comment out workflow.allOf section since the $ref breaks execution of - ## BTE's api-schema-builder/openapi-validator-middleware - ## - AsyncQuery: callback property not required (commented it out of the 'required' field), - ## comment out workflow.allOf section - ## - Response: comment out workflow.allOf section - ## - QEdge: set additionalProperties to false (see comments below for details) - ## - Attribute: comment out properties.attributes.items since the self-$ref breaks execution of - ## BTE's api-schema-builder/openapi-validator-middleware - schemas: - Query: - description: >- - The Query class is used to package a user request for information. A - Query object consists of a required Message object with optional - additional properties. Additional properties are intended to convey - implementation-specific or query-independent parameters. For example, - an additional property specifying a log level could allow a user to - override the default log level in order to receive more fine-grained - log information when debugging an issue. - x-body-name: request_body - type: object - properties: - message: - $ref: '#/components/schemas/Message' - description: >- - The query Message is a serialization of the user request. Content - of the Message object depends on the intended TRAPI operation. For - example, the fill operation requires a non-empty query_graph field - as part of the Message, whereas other operations, e.g. overlay, - require non-empty results and knowledge_graph fields. - log_level: - description: The least critical level of logs to return - allOf: - - $ref: '#/components/schemas/LogLevel' - nullable: true - workflow: - description: List of workflow steps to be executed. - # allOf: - # - $ref: http://standards.ncats.io/workflow/1.0.0/schema - nullable: true - submitter: - type: string - description: >- - Any string for self-identifying the submitter of a query. The - purpose of this optional field is to aid in the tracking of - the source of queries for development and issue resolution. - nullable: true - additionalProperties: true - required: - - message - AsyncQuery: - description: >- - The AsyncQuery class is effectively the same as the Query class but - it requires a callback property. - x-body-name: request_body - type: object - properties: - callback: - type: string - format: uri - pattern: ^https?:// - description: >- - Upon completion, this server will send a POST request to the - callback URL with `Content-Type: application/json` header and - request body containing a JSON-encoded `Response` object. - The server MAY POST `Response` objects before work is fully - complete to provide interim results with a Response.status - value of 'Running'. If a POST operation to the callback URL - does not succeed, the server SHOULD retry the POST at least - once. - message: - $ref: '#/components/schemas/Message' - description: >- - The query Message is a serialization of the user request. Content - of the Message object depends on the intended TRAPI operation. For - example, the fill operation requires a non-empty query_graph field - as part of the Message, whereas other operations, e.g. overlay, - require non-empty results and knowledge_graph fields. - log_level: - description: The least critical level of logs to return - allOf: - - $ref: '#/components/schemas/LogLevel' - nullable: true - workflow: - description: List of workflow steps to be executed. - # allOf: - # - $ref: http://standards.ncats.io/workflow/1.0.0/schema - nullable: true - submitter: - type: string - description: >- - Any string for self-identifying the submitter of a query. The - purpose of this optional field is to aid in the tracking of - the source of queries for development and issue resolution. - nullable: true - additionalProperties: true - required: - ## BTE does not require the callback property, see the asyncquery - ## endpoint summary and 200 response description - # - callback - - message - Response: - type: object - description: >- - The Response object contains the main payload when a TRAPI query - endpoint interprets and responds to the submitted query successfully - (i.e., HTTP Status Code 200). The message property contains the - knowledge of the response (query graph, knowledge graph, and results). - The status, description, and logs properties provide additional details - about the response. - properties: - message: - description: >- - Contains the knowledge of the response (query graph, knowledge - graph, and results). - $ref: '#/components/schemas/Message' - status: - description: >- - One of a standardized set of short codes, - e.g. Success, QueryNotTraversable, KPsNotAvailable - type: string - example: Success - nullable: true - description: - description: A brief human-readable description of the outcome - type: string - example: Success. 42 results found. - nullable: true - logs: - description: >- - Log entries containing errors, warnings, debugging information, etc - type: array - items: - $ref: '#/components/schemas/LogEntry' - nullable: true - workflow: - description: List of workflow steps that were executed. - # allOf: - # - $ref: http://standards.ncats.io/workflow/1.0.0/schema - nullable: true - additionalProperties: true - required: - - message - Message: - description: >- - The message object holds the main content of a Query or a Response in - three properties: query_graph, results, and knowledge_graph. - The query_graph property contains the query configuration, the results - property contains any answers that are returned by the service, - and knowledge_graph property contains lists of edges and nodes in the - thought graph corresponding to this message. The content of these - properties is context-dependent to the encompassing object and - the TRAPI operation requested. - type: object - properties: - results: - description: >- - List of all returned Result objects for the query posed. - The list SHOULD NOT be assumed to be ordered. The 'score' property, - if present, MAY be used to infer result rankings. - type: array - items: - $ref: '#/components/schemas/Result' - nullable: true - query_graph: - description: >- - QueryGraph object that contains a serialization of a query in the - form of a graph - allOf: - - $ref: '#/components/schemas/QueryGraph' - nullable: true - knowledge_graph: - description: >- - KnowledgeGraph object that contains lists of nodes and edges - in the thought graph corresponding to the message - allOf: - - $ref: '#/components/schemas/KnowledgeGraph' - nullable: true - additionalProperties: false - LogEntry: - description: >- - The LogEntry object contains information useful for tracing - and debugging across Translator components. Although an - individual component (for example, an ARA or KP) may have its - own logging and debugging infrastructure, this internal - information is not, in general, available to other components. - In addition to a timestamp and logging level, LogEntry - includes a string intended to be read by a human, along with - one of a standardized set of codes describing the condition of - the component sending the message. - type: object - properties: - timestamp: - type: string - format: date-time - description: Timestamp in ISO 8601 format - example: '2020-09-03T18:13:49+00:00' - nullable: true - level: - allOf: - - $ref: '#/components/schemas/LogLevel' - nullable: true - code: - type: string - description: >- - One of a standardized set of short codes - e.g. QueryNotTraversable, KPNotAvailable, KPResponseMalformed - nullable: true - message: - type: string - description: A human-readable log message - nullable: true - additionalProperties: true - LogLevel: - type: string - description: Logging level - enum: - - ERROR - - WARNING - - INFO - - DEBUG - Result: - type: object - description: >- - A Result object specifies the nodes and edges in the knowledge graph - that satisfy the structure or conditions of a user-submitted query - graph. It must contain a NodeBindings object (list of query graph node - to knowledge graph node mappings) and an EdgeBindings object (list of - query graph edge to knowledge graph edge mappings). - properties: - node_bindings: - type: object - description: >- - The dictionary of Input Query Graph to Result Knowledge Graph node - bindings where the dictionary keys are the key identifiers of the - Query Graph nodes and the associated values of those keys are - instances of NodeBinding schema type (see below). This value is an - array of NodeBindings since a given query node may have multiple - knowledge graph Node bindings in the result. - additionalProperties: - type: array - items: - $ref: '#/components/schemas/NodeBinding' - edge_bindings: - type: object - description: >- - The dictionary of Input Query Graph to Result Knowledge Graph edge - bindings where the dictionary keys are the key identifiers of the - Query Graph edges and the associated values of those keys are - instances of EdgeBinding schema type (see below). This value is an - array of EdgeBindings since a given query edge may resolve to - multiple knowledge graph edges in the result. - additionalProperties: - type: array - items: - $ref: '#/components/schemas/EdgeBinding' - score: - type: number - format: float - example: 163.233 - description: >- - A numerical score associated with this result indicating the - relevance or confidence of this result relative to others in the - returned set. Higher MUST be better. - nullable: true - additionalProperties: true - required: - - node_bindings - - edge_bindings - NodeBinding: - type: object - description: >- - An instance of NodeBinding is a single KnowledgeGraph Node mapping, - identified by the corresponding 'id' object key identifier of the - Node within the Knowledge Graph. Instances of NodeBinding may - include extra annotation in the form of additional properties. - (such annotation is not yet fully standardized). - properties: - id: - $ref: '#/components/schemas/CURIE' - description: >- - The CURIE of a Node within the Knowledge Graph. - query_id: - $ref: '#/components/schemas/CURIE' - description: >- - An optional property to provide the CURIE in the QueryGraph to - which this binding applies. If the bound QNode does not have an - an 'id' property or if it is empty, then this query_id MUST be - null or absent. If the bound QNode has one or more CURIEs - as an 'id' and this NodeBinding's 'id' refers to a QNode 'id' - in a manner where the CURIEs are different (typically due to - the NodeBinding.id being a descendant of a QNode.id), then - this query_id MUST be provided. In other cases, there is no - ambiguity, and this query_id SHOULD NOT be provided. - attributes: - type: array - description: >- - A list of attributes providing further information about the - node binding. This is not intended for capturing node attributes - and should only be used for properties that vary from result to - result. - items: - $ref: '#/components/schemas/Attribute' - nullable: true - additionalProperties: true - required: - - id - EdgeBinding: - type: object - description: >- - A instance of EdgeBinding is a single KnowledgeGraph Edge mapping, - identified by the corresponding 'id' object key identifier of the - Edge within the Knowledge Graph. Instances of EdgeBinding may include - extra annotation (such annotation is not yet fully standardized). - properties: - id: - type: string - description: The key identifier of a specific KnowledgeGraph Edge. - attributes: - type: array - description: >- - A list of attributes providing further information about the - edge binding. This is not intended for capturing edge attributes - and should only be used for properties that vary from result to - result. - items: - $ref: '#/components/schemas/Attribute' - nullable: true - additionalProperties: true - required: - - id - KnowledgeGraph: - type: object - description: >- - The knowledge graph associated with a set of results. The instances - of Node and Edge defining this graph represent instances of - biolink:NamedThing (concept nodes) and biolink:Association - (relationship edges) representing (Attribute) annotated knowledge - returned from the knowledge sources and inference agents wrapped by - the given TRAPI implementation. - properties: - nodes: - type: object - description: >- - Dictionary of Node instances used in the KnowledgeGraph, - referenced elsewhere in the TRAPI output by the dictionary key. - additionalProperties: - $ref: '#/components/schemas/Node' - edges: - type: object - description: >- - Dictionary of Edge instances used in the KnowledgeGraph, - referenced elsewhere in the TRAPI output by the dictionary key. - additionalProperties: - $ref: '#/components/schemas/Edge' - additionalProperties: true - required: - - nodes - - edges - QueryGraph: - type: object - description: >- - A graph representing a biomedical question. It serves as a template for - each result (answer), where each bound knowledge graph node/edge is - expected to obey the constraints of the associated query graph element. - properties: - nodes: - type: object - description: >- - The node specifications. The keys of this map are unique node - identifiers and the corresponding values include the constraints - on bound nodes. - additionalProperties: - $ref: '#/components/schemas/QNode' - edges: - type: object - description: >- - The edge specifications. The keys of this map are unique edge - identifiers and the corresponding values include the constraints - on bound edges, in addition to specifying the subject and object - QNodes. - additionalProperties: - $ref: '#/components/schemas/QEdge' - additionalProperties: true - required: - - nodes - - edges - QNode: - type: object - description: A node in the QueryGraph used to represent an entity in a - query. If a CURIE is not specified, any nodes matching the category - of the QNode will be returned in the Results. - properties: - ids: - type: array - items: - $ref: '#/components/schemas/CURIE' - minItems: 1 - example: [OMIM:603903] - description: CURIE identifier for this node - nullable: true - categories: - type: array - items: - $ref: '#/components/schemas/BiolinkEntity' - minItems: 1 - nullable: true - is_set: - type: boolean - description: >- - Boolean that if set to true, indicates that this QNode MAY have - multiple KnowledgeGraph Nodes bound to it within each Result. - The nodes in a set should be considered as a set of independent - nodes, rather than a set of dependent nodes, i.e., the answer - would still be valid if the nodes in the set were instead returned - individually. Multiple QNodes may have is_set=True. If a QNode - (n1) with is_set=True is connected to a QNode (n2) with - is_set=False, each n1 must be connected to n2. If a QNode (n1) - with is_set=True is connected to a QNode (n2) with is_set=True, - each n1 must be connected to at least one n2. - default: false - constraints: - type: array - description: >- - A list of contraints applied to a query node. - If there are multiple items, they must all be true (equivalent - to AND) - items: - $ref: '#/components/schemas/AttributeConstraint' - default: [] - additionalProperties: true - QEdge: - type: object - description: >- - An edge in the QueryGraph used as an filter pattern specification in a - query. If the optional predicate property is not specified, - it is assumed to be a wildcard match to the target knowledge space. - If specified, the ontological inheritance hierarchy associated with - the term provided is assumed, such that edge bindings returned may be - an exact match to the given QEdge predicate term, - or to a term that is a descendant of the QEdge predicate term. - properties: - knowledge_type: - description: >- - Indicates the type of knowledge that the client wants from the - server between the subject and object. If the value is - 'lookup', then the client wants direct lookup information from - knowledge sources. If the value is 'inferred', then the client - wants the server to get creative and connect the subject and - object in more speculative and non-direct-lookup ways. If this - property is absent or null, it MUST be assumed to mean - 'lookup'. This feature is currently experimental and may be - further extended in the future. - example: lookup - nullable: true - type: string - predicates: - type: array - items: - $ref: '#/components/schemas/BiolinkPredicate' - minItems: 1 - nullable: true - subject: - type: string - example: https://omim.org/entry/603903 - description: >- - Corresponds to the map key identifier of the - subject concept node anchoring the query filter - pattern for the query relationship edge. - object: - type: string - example: https://www.uniprot.org/uniprot/P00738 - description: >- - Corresponds to the map key identifier of the - object concept node anchoring the query filter - pattern for the query relationship edge. - attribute_constraints: - type: array - description: >- - A list of attribute contraints applied to a query edge. - If there are multiple items, they must all be true (equivalent - to AND) - items: - $ref: '#/components/schemas/AttributeConstraint' - default: [] - qualifier_constraints: - type: array - description: >- - A list of QualifierConstraints that provide nuance to the QEdge. - If multiple QualifierConstraints are provided, there is an OR - relationship between them. If the QEdge has multiple - predicates or if the QNodes that correspond to the subject or - object of this QEdge have multiple categories or multiple - curies, then qualifier_constraints MUST NOT be specified - because these complex use cases are not supported at this time. - items: - $ref: '#/components/schemas/QualifierConstraint' - default: [] - ## changing from true to false, so BTE will reject queries that have these additional properties - ## BTE doesn't use these and this is the easiest way to recognize when they are there and respond to that - ## Related to Implementation rules https://github.com/NCATSTranslator/ReasonerAPI/blob/1.3/ImplementationRules.md#qedgexxxxx - additionalProperties: false - required: - - subject - - object - Node: - type: object - description: >- - A node in the KnowledgeGraph which represents some biomedical - concept. Nodes are identified by the keys in the KnowledgeGraph - Node mapping. - properties: - name: - type: string - example: Haptoglobin - description: Formal name of the entity - nullable: true - categories: - type: array - items: - $ref: '#/components/schemas/BiolinkEntity' - nullable: true - attributes: - type: array - description: A list of attributes describing the node - items: - $ref: '#/components/schemas/Attribute' - nullable: true - additionalProperties: false - Attribute: - type: object - description: >- - Generic attribute for a node or an edge that expands the key-value - pair concept by including fields for additional metadata. These fields - can be used to describe the source of the statement made in a key-value - pair of the attribute object, or describe the attribute's value itself - including its semantic type, or a url providing additional information - about it. An attribute may be further qualified with sub-attributes - (for example to provide confidence intervals on a value). - properties: - attribute_type_id: - $ref: '#/components/schemas/CURIE' - description: >- - The 'key' of the attribute object, holding a CURIE of an ontology - property defining the attribute (preferably the CURIE of a - Biolink association slot). This property captures the relationship - asserted to hold between the value of the attribute, and the node - or edge from which it hangs. For example, that a value of - '0.000153' represents a p-value supporting an edge, or that - a value of 'ChEMBL' represents the original source of the knowledge - expressed in the edge. - example: biolink:synonym - original_attribute_name: - type: string - description: >- - The term used by the original source of an attribute to describe - the meaning or significance of the value it captures. This may be - a column name in a source tsv file, or a key in a source json - document for the field in the data that held the attribute's - value. Capturing this information where possible lets us preserve - what the original source said. Note that the data type is string' - but the contents of the field could also be a CURIE of a third - party ontology term. - example: p-value - nullable: true - value: - description: >- - Value of the attribute. May be any data type, including a list. - example: 0.000153 - value_type_id: - allOf: - - $ref: '#/components/schemas/CURIE' - description: >- - CURIE describing the semantic type of an attribute's value. Use - a Biolink class if possible, otherwise a term from an external - ontology. If a suitable CURIE/identifier does not exist, enter a - descriptive phrase here and submit the new type for consideration - by the appropriate authority. - example: EDAM:data_1187 - nullable: true - attribute_source: - type: string - description: >- - The source of the core assertion made by the key-value pair of an - attribute object. Use a CURIE or namespace designator for this - resource where possible. - example: UniProtKB - nullable: true - value_url: - type: string - description: >- - Human-consumable URL linking to a web document that provides - additional information about an attribute's value (not the node - or the edge fom which it hangs). - example: https://pubmed.ncbi.nlm.nih.gov/32529952 - nullable: true - description: - type: string - description: >- - Human-readable description for the attribute and its value. - example: Assertion Authored By Dr. Trans L. Ator - nullable: true - attributes: - type: array - description: >- - A list of attributes providing further information about the - parent attribute (for example to provide provenance - information about the parent attribute). - # items: - # $ref: '#/components/schemas/Attribute' - nullable: true - required: - - attribute_type_id - - value - additionalProperties: false - Edge: - type: object - description: >- - A specification of the semantic relationship linking two concepts - that are expressed as nodes in the knowledge "thought" graph - resulting from a query upon the underlying knowledge source. - properties: - predicate: - allOf: - - $ref: '#/components/schemas/BiolinkPredicate' - nullable: true - subject: - $ref: '#/components/schemas/CURIE' - example: OMIM:603903 - description: >- - Corresponds to the map key CURIE of the - subject concept node of this relationship edge. - object: - $ref: '#/components/schemas/CURIE' - example: UniProtKB:P00738 - description: >- - Corresponds to the map key CURIE of the - object concept node of this relationship edge. - attributes: - type: array - description: A list of additional attributes for this edge - items: - $ref: '#/components/schemas/Attribute' - nullable: true - qualifiers: - type: array - description: >- - A set of Qualifiers that act together to add nuance - or detail to the statement expressed in an Edge. - items: - $ref: '#/components/schemas/Qualifier' - nullable: true - additionalProperties: false - required: - - subject - - object - Qualifier: - additionalProperties: false - description: >- - An additional nuance attached to an assertion - type: object - properties: - qualifier_type_id: - type: string - description: >- - The category of the qualifier, drawn from a hierarchy of qualifier - slots in the Biolink model (e.g. subject_aspect, subject_direction, - object_aspect, object_direction, etc). - example: subject_aspect - nullable: false - qualifier_value: - type: string - description: >- - The value associated with the type of the qualifier, drawn from - a set of controlled values by the type as specified in - the Biolink model (e.g. 'expression' or 'abundance' for the - qualifier type 'subject_aspect', etc). - example: expression - nullable: false - required: - - qualifier_type_id - - qualifier_value - QualifierConstraint: - additionalProperties: false - description: >- - Defines a query constraint based on the - qualifier_types and qualifier_values of a set of - Qualifiers attached to an edge. For example, it can constrain a - "ChemicalX - affects - ?Gene" query to return only edges where - ChemicalX specifically affects the 'expression' of the Gene, - by constraining on the qualifier_type "object_aspect" with - a qualifier_value of "expression". - properties: - qualifier_set: - type: array - description: >- - A set of Qualifiers that serves to add nuance to a query, - by constraining allowed values held by Qualifiers - on queried Edges. - items: - $ref: '#/components/schemas/Qualifier' - nullable: false - required: - - qualifier_set - type: object - BiolinkEntity: - description: >- - Compact URI (CURIE) for a Biolink class, biolink:NamedThing - or a child thereof. The CURIE must use the prefix 'biolink:' - followed by the PascalCase class name. - type: string - pattern: ^biolink:[A-Z][a-zA-Z]*$ - externalDocs: - description: Biolink model entities - url: https://biolink.github.io/biolink-model/docs/NamedThing.html - example: biolink:PhenotypicFeature - BiolinkPredicate: - description: >- - CURIE for a Biolink 'predicate' slot, taken from the Biolink slot - ('is_a') hierarchy rooted in biolink:related_to (snake_case). This - predicate defines the Biolink relationship between the subject and - object nodes of a biolink:Association defining a knowledge graph edge. - type: string - pattern: ^biolink:[a-z][a-z_]*$ - externalDocs: - description: Biolink model predicates - url: https://biolink.github.io/biolink-model/docs/related_to.html - example: biolink:interacts_with - CURIE: - type: string - description: >- - A Compact URI, consisting of a prefix and a reference separated - by a colon, such as UniProtKB:P00738. Via an external context - definition, the CURIE prefix and colon may be replaced by a URI - prefix, such as http://identifiers.org/uniprot/, to form a full - URI. - externalDocs: - url: https://www.w3.org/TR/2010/NOTE-curie-20101216/ - MetaKnowledgeGraph: - type: object - description: >- - Knowledge-map representation of this TRAPI web service. The meta - knowledge graph is composed of the union of most specific categories - and predicates for each node and edge. - properties: - nodes: - type: object - description: >- - Collection of the most specific node categories provided by - this TRAPI web service, indexed by Biolink class CURIEs. - A node category is only exposed here if there is - node for which that is the most specific category available. - additionalProperties: - $ref: '#/components/schemas/MetaNode' - edges: - type: array - description: >- - List of the most specific edges/predicates provided by this TRAPI - web service. A predicate is only exposed here if there is an edge - for which the predicate is the most specific available. - items: - $ref: '#/components/schemas/MetaEdge' - required: - - nodes - - edges - MetaNode: - type: object - description: >- - Description of a node category provided by this TRAPI web service. - properties: - id_prefixes: - type: array - description: >- - List of CURIE prefixes for the node category that this TRAPI web - service understands and accepts on the input. - items: - type: string - minItems: 1 - example: [CHEMBL.COMPOUND, INCHIKEY] - attributes: - type: array - description: >- - Node attributes provided by this TRAPI web service. - items: - $ref: '#/components/schemas/MetaAttribute' - nullable: true - required: - - id_prefixes - additionalProperties: false - MetaEdge: - type: object - description: >- - Edge in a meta knowledge map describing relationship between a subject - Biolink class and an object Biolink class. - properties: - subject: - $ref: '#/components/schemas/BiolinkEntity' - description: >- - Subject node category of this relationship edge. - example: biolink:ChemicalEntity - predicate: - $ref: '#/components/schemas/BiolinkPredicate' - description: >- - Biolink relationship between the subject and object categories. - example: biolink:affects - object: - $ref: '#/components/schemas/BiolinkEntity' - description: >- - Object node category of this relationship edge. - example: biolink:Protein - knowledge_types: - description: >- - A list of knowledge_types that are supported by the service. - If the knowledge_types is null, this means that only 'lookup' - is supported. Currently allowed values are 'lookup' or 'inferred'. - items: - type: string - minItems: 1 - nullable: true - type: array - attributes: - type: array - description: >- - Edge attributes provided by this TRAPI web service. - items: - $ref: '#/components/schemas/MetaAttribute' - nullable: true - required: - - subject - - predicate - - object - additionalProperties: false - MetaAttribute: - type: object - properties: - attribute_type_id: - $ref: '#/components/schemas/CURIE' - description: >- - Type of an attribute provided by this TRAPI web service - (preferably the CURIE of a Biolink association slot) - example: biolink:p_value - attribute_source: - type: string - description: >- - Source of an attribute provided by this TRAPI web service. - example: infores:chembl - nullable: true - original_attribute_names: - type: array - items: - type: string - description: >- - Names of an the attribute as provided by the source. - nullable: true - minItems: 1 - constraint_use: - type: boolean - description: >- - Indicates whether this attribute can be used as a query - constraint. - default: false - constraint_name: - type: string - description: >- - Human-readable name or label for the constraint concept. - Required whenever constraint_use is true. - example: p-value - nullable: true - required: - - attribute_type_id - AttributeConstraint: - type: object - description: >- - Generic query constraint for a query node or query edge - properties: - id: - allOf: - - $ref: '#/components/schemas/CURIE' - description: >- - CURIE of the concept being constrained. For properties - defined by the Biolink model this SHOULD be a biolink CURIE. - otherwise, if possible, from the EDAM ontology. If a suitable - CURIE does not exist, enter a descriptive phrase here and - submit the new type for consideration by the appropriate - authority. - example: EDAM:data_0844 - name: - type: string - description: >- - Human-readable name or label for the constraint concept. - If appropriate, it SHOULD be the term name of the CURIE used - as the 'id'. This is redundant but required for human - readability. - example: molecular mass - not: - type: boolean - default: false - operator: - type: string - description: >- - Relationship between the database value and the constraint value - for the specified id. The operators ==, >, and < mean - is equal to, is greater than, and is less than, - respectively. The 'matches' operator indicates that the value - is a regular expression to be evaluated. If value is a list type, - then at least one evaluation must be true (equivalent to OR). - This means that the == operator with a list acts like a SQL 'IN' - clause. If the value of the compared attribute is a list, then - comparisons are performed between each of the constraint values - and each of the attribute values, and any one true evaluation - counts as an overall true (e.g., [1,2,3] == [6,7,2] is true). - The == operator is therefore a broad interpretation of inclusion. - The '===' operator requires that the constraint value and - the attribute value be the same data type, length, - content, and order (e.g. only [1,2,3] === [1,2,3]). - The 'not' property negates the operator such that not - and == means 'not equal to' (or 'not in' for a list), and not > - means <=, and not < means >=, not matches means does not - match, and not === means the match between the constraint - and attribute values are not exact. - The '==' operator SHOULD NOT be used in a manner that - describes an "is a" subclass relationship for the parent QNode. - enum: - - == - - '>' - - < - - matches - - === - value: - example: 57.0 - description: >- - Value of the attribute. May be any data type, including a list. - If the value is a list and there are multiple items, at least one - comparison must be true (equivalent to OR) unless the '===' - operator is used. If 'value' is of data - type 'object', the keys of the object MAY be treated as a list. - A 'list' data type paired with the '>' or '<' operators will - encode extraneous comparisons, but this is permitted as it is in - SQL and other languages. - unit_id: - example: UO:0000222 - description: >- - CURIE of the units of the value or list of values in the 'value' - property. The Units of Measurement Ontology (UO) should be used - if possible. The unit_id MUST be provided for (lists of) - numerical values that correspond to a quantity that has units. - nullable: true - unit_name: - example: kilodalton - description: >- - Term name that is associated with the CURIE of the units - of the value or list of values in the 'value' - property. The Units of Measurement Ontology (UO) SHOULD be used - if possible. This property SHOULD be provided if a unit_id is - provided. This is redundant but recommended for human readability. - nullable: true - required: - - name - - id - - operator - - value - additionalProperties: false diff --git a/dgidb/openapi.yml b/dgidb/openapi.yml index a326e206..12332bcf 100644 --- a/dgidb/openapi.yml +++ b/dgidb/openapi.yml @@ -14,7 +14,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.0.3" servers: - description: Encrypted Production server url: https://biothings.ncats.io/dgidb @@ -927,7 +927,7 @@ components: outputs: - id: NCBIGene semantic: Gene - ## biolink 3.0.2: not sure if all data fits "molecular channel blockage" + ## biolink 3.0.3: not sure if all data fits "molecular channel blockage" ## for biolink 2.4.8, DGIdb:blocker maps to decreases_activity_of predicate: affects qualifiers: @@ -1004,7 +1004,7 @@ components: # semantic: Gene # ## for biolink 2.4.8, DGIdb:inducer maps to increases_activity_of # predicate: affects - # ## dgidb definition doesn't match biolink 3.0.2's inducer definition + # ## dgidb definition doesn't match biolink 3.0.3's inducer definition # ## so not using that causal_mechanism_qualifier # qualifiers: # qualified_predicate: causes diff --git a/ebi_proteins/openapi.yml b/ebi_proteins/openapi.yml index b4a99d44..d3a4729c 100644 --- a/ebi_proteins/openapi.yml +++ b/ebi_proteins/openapi.yml @@ -18,7 +18,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.0.3" servers: - url: 'https://www.ebi.ac.uk/proteins/api' x-maturity: production diff --git a/go_bp/smartapi.yaml b/go_bp/smartapi.yaml index 84002317..9a5af080 100644 --- a/go_bp/smartapi.yaml +++ b/go_bp/smartapi.yaml @@ -14,7 +14,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.0.3" servers: - description: Encrypted Production server url: https://biothings.ncats.io/go_bp diff --git a/go_cc/smartapi.yaml b/go_cc/smartapi.yaml index 268fb711..44dc048e 100644 --- a/go_cc/smartapi.yaml +++ b/go_cc/smartapi.yaml @@ -14,7 +14,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.0.3" servers: - description: Encrypted Production server url: https://biothings.ncats.io/go_cc diff --git a/go_mf/smartapi.yaml b/go_mf/smartapi.yaml index fdda28b7..d33522a5 100644 --- a/go_mf/smartapi.yaml +++ b/go_mf/smartapi.yaml @@ -5,16 +5,16 @@ info: name: BioThings Team x-id: https://github.com/biothings x-role: responsible developers - description: Documentation of the Gene Ontology Molecular Activity query web services. + description: Documentation of the Gene Ontology Molecular Function query web services. termsOfService: https://biothings.io/about - title: Gene Ontology Molecular Activity API + title: Gene Ontology Molecular Function API version: '2020.07' x-translator: infores: "infores:biothings-go-mf" component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.0.3" servers: - description: Encrypted Production server url: https://biothings.ncats.io/go_mf @@ -24,7 +24,7 @@ servers: x-maturity: production tags: - name: ontology -- name: molecular activity +- name: molecular function - name: geneset - name: query - name: translator diff --git a/hpo/smartapi.yaml b/hpo/smartapi.yaml index b5b7f140..625e4cfe 100644 --- a/hpo/smartapi.yaml +++ b/hpo/smartapi.yaml @@ -14,7 +14,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.0.3" servers: - description: Encrypted Production server url: https://biothings.ncats.io/hpo diff --git a/idisk/smartapi.yaml b/idisk/smartapi.yaml index 80056d7d..98c75512 100644 --- a/idisk/smartapi.yaml +++ b/idisk/smartapi.yaml @@ -14,7 +14,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.0.3" servers: - description: Encrypted Production server url: https://biothings.ncats.io/idisk diff --git a/litvar/smartapi.yaml b/litvar/smartapi.yaml index c2e977f6..b589672a 100644 --- a/litvar/smartapi.yaml +++ b/litvar/smartapi.yaml @@ -2,11 +2,13 @@ openapi: 3.0.3 info: version: 1.1.0 title: LitVar API - description: LitVar allows the search and retrieval of variant relevant information + description: >- + LitVar allows the search and retrieval of variant relevant information from the biomedical literature and shows key biological relations between a variant and its close related entities (e.g. genes, diseases, and drugs). The LitVar results are automatically extracted (with regular updates) from over 27 million PubMed - articles as well as applicable full-text articles in PubMed Central. + articles as well as applicable full-text articles in PubMed Central. See + https://www.ncbi.nlm.nih.gov/CBBresearch/Lu/Demo/LitVar/api.html for details. termsOfService: https://www.ncbi.nlm.nih.gov/home/about/policies/ contact: name: Zhiyong Lu @@ -16,7 +18,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.0.3" servers: - url: https://www.ncbi.nlm.nih.gov/research/bionlp/litvar/api/v1 description: Production server diff --git a/mychem.info/openapi_full.yml b/mychem.info/openapi_full.yml index 883aa459..81d4a652 100644 --- a/mychem.info/openapi_full.yml +++ b/mychem.info/openapi_full.yml @@ -15,7 +15,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.4.8" + biolink-version: "3.0.3" servers: - description: Encrypted Production server url: https://mychem.info/v1 diff --git a/mydisease.info/smartapi.yaml b/mydisease.info/smartapi.yaml index f9f6a543..5adb7838 100644 --- a/mydisease.info/smartapi.yaml +++ b/mydisease.info/smartapi.yaml @@ -15,7 +15,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.0.3" servers: - description: Production server url: http://mydisease.info/v1 diff --git a/mygene.info/openapi_full.yml b/mygene.info/openapi_full.yml index 7f90ff03..901c1f3e 100644 --- a/mygene.info/openapi_full.yml +++ b/mygene.info/openapi_full.yml @@ -816,8 +816,8 @@ info: component: KP team: - "Service Provider" - biolink-version: "2.4.8" -openapi: "3.0.0" + biolink-version: "3.0.3" +openapi: "3.0.3" paths: /gene: post: diff --git a/myvariant.info/openapi_full.yml b/myvariant.info/openapi_full.yml index 44a5696c..45d18c75 100644 --- a/myvariant.info/openapi_full.yml +++ b/myvariant.info/openapi_full.yml @@ -1,4 +1,4 @@ -openapi: 3.0.0 +openapi: 3.0.3 info: contact: email: help@myvariant.info @@ -15,7 +15,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.8" + biolink-version: "3.0.3" servers: - description: Encrypted Production server url: https://myvariant.info/v1 diff --git a/ols/smartapi.yaml b/ols/smartapi.yaml index ebbbc4e6..5ff13150 100644 --- a/ols/smartapi.yaml +++ b/ols/smartapi.yaml @@ -1,4 +1,4 @@ -openapi: 3.0.0 +openapi: 3.0.3 info: version: '1.0' title: Ontology Lookup Service API @@ -8,6 +8,7 @@ info: from GO (the Gene Ontology) and ECO (the Evidence & Conclusion Ontology), Gene Ontology annotations from the EBI's GOA database, and gene products (proteins from UniProt, RNA from RNAcentral and complexes from ComplexPortal). + See https://www.ebi.ac.uk/ols/docs/api for more details. termsOfService: https://www.ebi.ac.uk/OLS/services contact: name: pharmgkb help desk @@ -18,7 +19,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.0.3" servers: - url: https://www.ebi.ac.uk/ols/api description: Production server diff --git a/pfocr/smartapi.yaml b/pfocr/smartapi.yaml index 4df9396f..46206f19 100644 --- a/pfocr/smartapi.yaml +++ b/pfocr/smartapi.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.0.3" servers: - description: Encrypted Production server url: https://biothings.ncats.io/pfocr diff --git a/quickgo/smartapi.yaml b/quickgo/smartapi.yaml index 6054fd7d..649f33dc 100644 --- a/quickgo/smartapi.yaml +++ b/quickgo/smartapi.yaml @@ -1,5 +1,5 @@ --- -openapi: 3.0.0 +openapi: 3.0.3 info: version: '1.0' title: QuickGO API @@ -9,6 +9,7 @@ info: terms from GO (the Gene Ontology) and ECO (the Evidence & Conclusion Ontology), Gene Ontology annotations from the EBI's GOA database, and gene products (proteins from UniProt, RNA from RNAcentral and complexes from ComplexPortal). + See https://www.ebi.ac.uk/QuickGO/api/index.html for more details. termsOfService: https://www.ebi.ac.uk/QuickGO/services contact: name: pharmgkb help desk @@ -19,7 +20,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.0.3" servers: - url: https://www.ebi.ac.uk/QuickGO/services description: Production server diff --git a/rhea/smartapi.yaml b/rhea/smartapi.yaml index 04528d56..cee346fc 100644 --- a/rhea/smartapi.yaml +++ b/rhea/smartapi.yaml @@ -14,7 +14,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.0.3" servers: - description: Encrypted Production server url: https://biothings.ncats.io/rhea diff --git a/semmeddb/smartapi.yaml b/semmeddb/smartapi.yaml index 672f9628..a296716a 100644 --- a/semmeddb/smartapi.yaml +++ b/semmeddb/smartapi.yaml @@ -14,7 +14,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.4.8" + biolink-version: "3.0.3" servers: - description: Production server url: https://biothings.ncats.io/semmeddb diff --git a/semmeddb/version_without_operations.yaml b/semmeddb/version_without_operations.yaml index 4f5e2537..9229c542 100644 --- a/semmeddb/version_without_operations.yaml +++ b/semmeddb/version_without_operations.yaml @@ -14,7 +14,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.4.8" + biolink-version: "3.0.3" servers: - description: Production server url: https://biothings.ncats.io/semmeddb diff --git a/text_mining/smartapi.yaml b/text_mining/smartapi.yaml index d993518b..6517720a 100644 --- a/text_mining/smartapi.yaml +++ b/text_mining/smartapi.yaml @@ -1,4 +1,4 @@ -openapi: 3.0.0 +openapi: 3.0.3 info: contact: email: william.baumgartner@cuanschutz.edu @@ -8,14 +8,14 @@ info: description: Documentation of the Text Mining Targeted Association query web services. termsOfService: https://biothings.io/about title: Text Mining Targeted Association API - version: '1.0' + version: '2022-09-01' x-translator: infores: "infores:text-mining-provider-targeted" component: KP team: - Text Mining Provider - Service Provider - biolink-version: "2.2.8" + biolink-version: "3.0.3" servers: - description: Encrypted Production server url: https://biothings.ncats.io/text_mining_targeted_association diff --git a/uberon/smartapi.yaml b/uberon/smartapi.yaml index 9b9285d5..99d73227 100644 --- a/uberon/smartapi.yaml +++ b/uberon/smartapi.yaml @@ -1,4 +1,4 @@ -openapi: 3.0.0 +openapi: 3.0.3 info: contact: email: help@biothings.io @@ -8,12 +8,13 @@ info: description: Documentation of the UBERON query web services. termsOfService: https://biothings.io/about title: UBERON Ontology API - version: '1.0' + version: '2019.11' x-translator: infores: "infores:biothings-uberon-ontology" component: KP team: - Service Provider + biolink-version: "3.0.3" servers: - description: Encrypted Production server url: https://biothings.ncats.io/uberon @@ -565,6 +566,7 @@ components: $ref: '#/components/x-bte-response-mapping/develops_from' source: "infores:uberon" supportBatch: true + ## missing an inverse operation x-bte-response-mapping: has_subclass: UBERON: children From 72bacb0e6f53f84c31bc5381eb47e63be17db502 Mon Sep 17 00:00:00 2001 From: Jackson Callaghan <43009413+tokebe@users.noreply.github.com> Date: Wed, 2 Nov 2022 14:31:07 -0400 Subject: [PATCH 27/46] fix indentation typo --- go_bp/smartapi.yaml | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/go_bp/smartapi.yaml b/go_bp/smartapi.yaml index 9a5af080..7f67d2d6 100644 --- a/go_bp/smartapi.yaml +++ b/go_bp/smartapi.yaml @@ -532,8 +532,8 @@ components: ## interpretation: Y's "downregulated" state "regulated_by" X ## biolink 2.4.8: used process_negatively_regulated_by_process predicate: regulated_by - qualifiers: - subject_direction_qualifier: downregulated + qualifiers: + subject_direction_qualifier: downregulated source: "infores:go" response_mapping: $ref: '#/components/x-bte-response-mapping/negatively_regulated_by' From 8e1f0a079372362ccde2c31c38dcbeeddf37d2f4 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Thu, 3 Nov 2022 21:10:45 -0700 Subject: [PATCH 28/46] text-mining targeted: rewind qualifier-refactor edits use other branch to get qualifier-refactor for this api https://github.com/NCATS-Tangerine/translator-api-registry/blob/biolink3-textMining/text_mining/smartapi.yaml --- text_mining/smartapi.yaml | 90 +++++++-------------------------------- 1 file changed, 15 insertions(+), 75 deletions(-) diff --git a/text_mining/smartapi.yaml b/text_mining/smartapi.yaml index 6517720a..d2a29b56 100644 --- a/text_mining/smartapi.yaml +++ b/text_mining/smartapi.yaml @@ -1,4 +1,4 @@ -openapi: 3.0.3 +openapi: 3.0.0 info: contact: email: william.baumgartner@cuanschutz.edu @@ -8,14 +8,14 @@ info: description: Documentation of the Text Mining Targeted Association query web services. termsOfService: https://biothings.io/about title: Text Mining Targeted Association API - version: '2022-09-01' + version: '1.0' x-translator: infores: "infores:text-mining-provider-targeted" component: KP team: - Text Mining Provider - Service Provider - biolink-version: "3.0.3" + biolink-version: "2.2.8" servers: - description: Encrypted Production server url: https://biothings.ncats.io/text_mining_targeted_association @@ -655,12 +655,7 @@ components: outputs: - id: UniProtKB semantic: Gene - ## biolink 3.0.3: this is a mixin. Is this an issue? - ## interpretation: X "regulates" Y's "upregulated" state - ## biolink 2.4.8: used entity_positively_regulates_entity - predicate: regulates - qualifiers: - object_direction_qualifier: upregulated + predicate: entity_positively_regulates_entity response_mapping: "$ref": "#/components/x-bte-response-mapping/uniprotkb-object" ## Examples: @@ -687,12 +682,7 @@ components: outputs: - id: CHEBI semantic: SmallMolecule - ## biolink 3.0.3: this is a mixin. Is this an issue? - ## interpretation: Y's "upregulated" state "regulated_by" X - ## biolink 2.4.8: used entity_positively_regulated_by_entity - predicate: regulated_by - qualifiers: - subject_direction_qualifier: upregulated + predicate: entity_positively_regulated_by_entity response_mapping: "$ref": "#/components/x-bte-response-mapping/chebi-subject" ## Examples: @@ -718,12 +708,7 @@ components: outputs: - id: UniProtKB semantic: Gene - ## biolink 3.0.3: this is a mixin. Is this an issue? - ## interpretation: X "regulates" Y's "downregulated" state - ## biolink 2.4.8: used entity_negatively_regulates_entity - predicate: regulates - qualifiers: - object_direction_qualifier: downregulated + predicate: entity_negatively_regulates_entity response_mapping: "$ref": "#/components/x-bte-response-mapping/uniprotkb-object" ## Examples: @@ -750,12 +735,7 @@ components: outputs: - id: CHEBI semantic: SmallMolecule - ## biolink 3.0.3: this is a mixin. Is this an issue? - ## interpretation: Y's "downregulated" state "regulated_by" X - ## biolink 2.4.8: used entity_negatively_regulated_by_entity - predicate: regulated_by - qualifiers: - subject_direction_qualifier: downregulated + predicate: entity_negatively_regulated_by_entity response_mapping: "$ref": "#/components/x-bte-response-mapping/chebi-subject" ## Examples: @@ -781,12 +761,7 @@ components: outputs: - id: UniProtKB semantic: Gene - ## biolink 3.0.3: this is a mixin. Is this an issue? - ## interpretation: X "regulates" Y's "upregulated" state - ## biolink 2.4.8: used entity_positively_regulates_entity - predicate: regulates - qualifiers: - object_direction_qualifier: upregulated + predicate: entity_positively_regulates_entity response_mapping: "$ref": "#/components/x-bte-response-mapping/uniprotkb-object" ## Examples: @@ -813,12 +788,7 @@ components: outputs: - id: DRUGBANK semantic: SmallMolecule - ## biolink 3.0.3: this is a mixin. Is this an issue? - ## interpretation: Y's "upregulated" state "regulated_by" X - ## biolink 2.4.8: used entity_positively_regulated_by_entity - predicate: regulated_by - qualifiers: - subject_direction_qualifier: upregulated + predicate: entity_positively_regulated_by_entity response_mapping: "$ref": "#/components/x-bte-response-mapping/drugbank-subject" ## Examples: @@ -844,12 +814,7 @@ components: outputs: - id: UniProtKB semantic: Gene - ## biolink 3.0.3: this is a mixin. Is this an issue? - ## interpretation: X "regulates" Y's "downregulated" state - ## biolink 2.4.8: used entity_negatively_regulates_entity - predicate: regulates - qualifiers: - object_direction_qualifier: downregulated + predicate: entity_negatively_regulates_entity response_mapping: "$ref": "#/components/x-bte-response-mapping/uniprotkb-object" ## Examples: @@ -876,12 +841,7 @@ components: outputs: - id: DRUGBANK semantic: SmallMolecule - ## biolink 3.0.3: this is a mixin. Is this an issue? - ## interpretation: Y's "downregulated" state "regulated_by" X - ## biolink 2.4.8: used entity_negatively_regulated_by_entity - predicate: regulated_by - qualifiers: - subject_direction_qualifier: downregulated + predicate: entity_negatively_regulated_by_entity response_mapping: "$ref": "#/components/x-bte-response-mapping/drugbank-subject" ## Examples: @@ -907,12 +867,7 @@ components: outputs: - id: UniProtKB semantic: Gene - ## biolink 3.0.3: this is a mixin. Is this an issue? - ## interpretation: X "regulates" Y's "upregulated" state - ## biolink 2.4.8: used entity_positively_regulates_entity - predicate: regulates - qualifiers: - object_direction_qualifier: upregulated + predicate: entity_positively_regulates_entity response_mapping: "$ref": "#/components/x-bte-response-mapping/uniprotkb-object" ## Examples: @@ -938,12 +893,7 @@ components: outputs: - id: UniProtKB semantic: Gene - ## biolink 3.0.3: this is a mixin. Is this an issue? - ## interpretation: Y's "upregulated" state "regulated_by" X - ## biolink 2.4.8: used entity_positively_regulated_by_entity - predicate: regulated_by - qualifiers: - subject_direction_qualifier: upregulated + predicate: entity_positively_regulated_by_entity response_mapping: "$ref": "#/components/x-bte-response-mapping/uniprotkb-subject" ## Examples: @@ -969,12 +919,7 @@ components: outputs: - id: UniProtKB semantic: Gene - ## biolink 3.0.3: this is a mixin. Is this an issue? - ## interpretation: X "regulates" Y's "downregulated" state - ## biolink 2.4.8: used entity_negatively_regulates_entity - predicate: regulates - qualifiers: - object_direction_qualifier: downregulated + predicate: entity_negatively_regulates_entity response_mapping: "$ref": "#/components/x-bte-response-mapping/uniprotkb-object" ## Examples: @@ -1000,12 +945,7 @@ components: outputs: - id: UniProtKB semantic: Gene - ## biolink 3.0.3: this is a mixin. Is this an issue? - ## interpretation: Y's "downregulated" state "regulated_by" X - ## biolink 2.4.8: used entity_negatively_regulated_by_entity - predicate: regulated_by - qualifiers: - subject_direction_qualifier: downregulated + predicate: entity_negatively_regulated_by_entity response_mapping: "$ref": "#/components/x-bte-response-mapping/uniprotkb-subject" ## Examples: From adc41c49048f355467913fa0e5136d7185dd3839 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Thu, 3 Nov 2022 21:28:27 -0700 Subject: [PATCH 29/46] semmeddb: replace regulates/regulated_by with affects/affected_by due to ambiguity of semmeddb relationship vs biolink-model definition of regulates https://github.com/biolink/biolink-model/blob/v3.0.3/biolink-model.yaml\#L3797 --- semmeddb/generated_operations.yaml | 2688 ++++++++++++++++++---------- semmeddb/smartapi.yaml | 2688 ++++++++++++++++++---------- 2 files changed, 3584 insertions(+), 1792 deletions(-) diff --git a/semmeddb/generated_operations.yaml b/semmeddb/generated_operations.yaml index ca4fa4a7..4a28575e 100644 --- a/semmeddb/generated_operations.yaml +++ b/semmeddb/generated_operations.yaml @@ -457,9 +457,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -481,9 +483,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -945,9 +949,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -969,9 +975,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -1213,9 +1221,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -1237,9 +1247,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -1503,9 +1515,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Cell - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -1527,9 +1541,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -1551,9 +1567,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -1575,9 +1593,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -2017,9 +2037,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -2041,9 +2063,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -2241,9 +2265,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -2375,9 +2401,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: MolecularActivity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -2399,9 +2427,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -2423,9 +2453,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -2447,9 +2479,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -3637,9 +3671,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -3705,9 +3741,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -3729,9 +3767,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -3753,9 +3793,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -3777,9 +3819,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -4263,9 +4307,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -4287,9 +4333,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5059,9 +5107,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5347,9 +5397,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: GrossAnatomicalStructure - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -5371,9 +5423,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5395,9 +5449,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -5419,9 +5475,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5597,9 +5655,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -5665,9 +5725,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -5689,9 +5751,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5955,9 +6019,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -5979,9 +6045,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -6135,9 +6203,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -6159,9 +6229,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -6183,9 +6255,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -6339,9 +6413,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -6561,9 +6637,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -6893,9 +6971,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -7445,9 +7525,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -7469,9 +7551,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -7867,9 +7951,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: GrossAnatomicalStructure - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -7891,9 +7977,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -7915,9 +8003,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8005,9 +8095,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8029,9 +8121,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8207,9 +8301,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Cell - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8231,9 +8327,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8255,9 +8353,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8279,9 +8379,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8435,9 +8537,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8745,9 +8849,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8835,9 +8941,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -9101,9 +9209,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -9125,9 +9235,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Procedure - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -9413,9 +9525,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -9437,9 +9551,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -9549,9 +9665,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: MolecularActivity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -9573,9 +9691,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -9641,9 +9761,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -9665,9 +9787,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -9821,9 +9945,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -9889,9 +10015,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -10133,9 +10261,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -10157,9 +10287,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -10269,9 +10401,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11019,9 +11153,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11329,9 +11465,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -11507,9 +11645,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11531,9 +11671,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: CellularComponent - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -11555,9 +11697,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11733,9 +11877,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -12307,9 +12453,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12331,9 +12479,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -12553,9 +12703,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -12687,9 +12839,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: GrossAnatomicalStructure - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12711,9 +12865,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -12867,9 +13023,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12891,9 +13049,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12959,9 +13119,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12983,9 +13145,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -13359,9 +13523,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -13383,9 +13549,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -13671,9 +13839,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -13695,9 +13865,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -13807,9 +13979,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -13831,9 +14005,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -13965,9 +14141,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -13989,9 +14167,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14299,9 +14479,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -14323,9 +14505,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14435,9 +14619,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14745,9 +14931,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -14769,9 +14957,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14793,9 +14983,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14817,9 +15009,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14863,9 +15057,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15151,9 +15347,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15373,9 +15571,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15507,9 +15707,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15531,9 +15733,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15665,9 +15869,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15689,9 +15895,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15845,9 +16053,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15979,9 +16189,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16047,9 +16259,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -16071,9 +16285,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16249,9 +16465,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -16405,9 +16623,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -16561,9 +16781,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16739,9 +16961,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -16895,9 +17119,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: CellularComponent - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -16919,9 +17145,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16943,9 +17171,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17473,9 +17703,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17651,9 +17883,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -17675,9 +17909,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -18029,9 +18265,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -18339,9 +18577,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -18363,9 +18603,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -18563,9 +18805,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -18631,9 +18875,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -18787,9 +19033,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -19075,9 +19323,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19253,9 +19503,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19453,9 +19705,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19565,9 +19819,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19875,9 +20131,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19965,9 +20223,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: CellularComponent - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19989,9 +20249,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -20013,9 +20275,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -20103,9 +20367,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -20215,9 +20481,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -20261,9 +20529,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -20285,9 +20555,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -20375,9 +20647,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -20641,9 +20915,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -20863,9 +21139,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -20931,9 +21209,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -20999,9 +21279,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21133,9 +21415,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21509,9 +21793,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -21555,9 +21841,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21689,9 +21977,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Cell - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -21713,9 +22003,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21891,9 +22183,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22091,9 +22385,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22115,9 +22411,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22161,9 +22459,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22185,9 +22485,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22319,9 +22621,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22343,9 +22647,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22631,9 +22937,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22655,9 +22963,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22701,9 +23011,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22747,9 +23059,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22925,9 +23239,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22949,9 +23265,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22995,9 +23313,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -23041,9 +23361,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -23065,9 +23387,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -23309,9 +23633,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -23421,9 +23747,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -23445,9 +23773,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -23557,9 +23887,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -23669,9 +24001,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24111,9 +24445,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Cell - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24135,9 +24471,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24357,9 +24695,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24425,9 +24765,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24581,9 +24923,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24605,9 +24949,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24805,9 +25151,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24873,9 +25221,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24897,9 +25247,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25075,9 +25427,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25099,9 +25453,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25145,9 +25501,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25169,9 +25527,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25259,9 +25619,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25283,9 +25645,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25307,9 +25671,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25353,9 +25719,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25421,9 +25789,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25467,9 +25837,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25491,9 +25863,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25581,9 +25955,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25715,9 +26091,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25783,9 +26161,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25873,9 +26253,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25919,9 +26301,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26009,9 +26393,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -26121,9 +26507,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26189,9 +26577,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -26213,9 +26603,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26237,9 +26629,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26415,9 +26809,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26461,9 +26857,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26507,9 +26905,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -26575,9 +26975,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26863,9 +27265,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27019,9 +27423,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: MolecularActivity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27043,9 +27449,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27287,9 +27695,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27443,9 +27853,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27467,9 +27879,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27733,9 +28147,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Cell - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27757,9 +28173,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27781,9 +28199,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27805,9 +28225,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27873,9 +28295,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28051,9 +28475,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28361,9 +28787,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28385,9 +28813,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28431,9 +28861,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28565,9 +28997,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: MolecularActivity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28589,9 +29023,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28767,9 +29203,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28923,9 +29361,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29035,9 +29475,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29103,9 +29545,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29281,9 +29725,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29305,9 +29751,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29725,9 +30173,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29749,9 +30199,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29817,9 +30269,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29841,9 +30295,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29887,9 +30343,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29999,9 +30457,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -30111,9 +30571,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -30157,9 +30619,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30181,9 +30645,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -30227,9 +30693,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -30383,9 +30851,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -30429,9 +30899,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30475,9 +30947,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -30587,9 +31061,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30655,9 +31131,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30767,9 +31245,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30835,9 +31315,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -31013,9 +31495,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31191,9 +31675,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31281,9 +31767,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31481,9 +31969,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31593,9 +32083,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32211,9 +32703,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32345,9 +32839,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32457,9 +32953,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32569,9 +33067,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32593,9 +33093,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32705,9 +33207,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32861,9 +33365,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32907,9 +33413,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32975,9 +33483,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -33021,9 +33531,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: MolecularActivity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -33045,9 +33557,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33179,9 +33693,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33467,9 +33983,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33579,9 +34097,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -33603,9 +34123,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -33627,9 +34149,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33827,9 +34351,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33917,9 +34443,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -33941,9 +34469,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34053,9 +34583,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34209,9 +34741,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -34387,9 +34921,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34477,9 +35013,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34545,9 +35083,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34745,9 +35285,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -34769,9 +35311,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34793,9 +35337,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34839,9 +35385,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: MolecularActivity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -34863,9 +35411,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35019,9 +35569,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -35087,9 +35639,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -35111,9 +35665,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35289,9 +35845,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -35379,9 +35937,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35645,9 +36205,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -35823,9 +36385,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36309,9 +36873,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36355,9 +36921,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36379,9 +36947,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36535,9 +37105,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36603,9 +37175,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36627,9 +37201,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36761,9 +37337,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36785,9 +37363,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36853,9 +37433,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36877,9 +37459,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36945,9 +37529,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36969,9 +37555,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37345,9 +37933,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -37369,9 +37959,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37481,9 +38073,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37505,9 +38099,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -37639,9 +38235,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37663,9 +38261,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: MolecularActivity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -37687,9 +38287,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37711,9 +38313,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37867,9 +38471,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37891,9 +38497,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37981,9 +38589,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -38027,9 +38637,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -38073,9 +38685,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -38361,9 +38975,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -38385,9 +39001,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -38409,9 +39027,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -38741,9 +39361,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39029,9 +39651,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39119,9 +39743,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39209,9 +39835,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39299,9 +39927,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39499,9 +40129,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39721,9 +40353,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39745,9 +40379,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39835,9 +40471,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39859,9 +40497,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39883,9 +40523,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40105,9 +40747,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40217,9 +40861,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -40241,9 +40887,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40331,9 +40979,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40377,9 +41027,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40511,9 +41163,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40535,9 +41189,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40669,9 +41325,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40781,9 +41439,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40827,9 +41487,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -41137,9 +41799,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -41271,9 +41935,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -41295,9 +41961,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41341,9 +42009,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41475,9 +42145,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41653,9 +42325,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41853,9 +42527,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -41877,9 +42553,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -41901,9 +42579,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41925,9 +42605,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41971,9 +42653,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42501,9 +43185,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Cell - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -42525,9 +43211,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42615,9 +43303,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -42771,9 +43461,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -42949,9 +43641,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -42973,9 +43667,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43151,9 +43847,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43175,9 +43873,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -43199,9 +43899,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43245,9 +43947,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43269,9 +43973,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43315,9 +44021,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43361,9 +44069,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43781,9 +44491,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -43805,9 +44517,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43873,9 +44587,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44095,9 +44811,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44119,9 +44837,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44319,9 +45039,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44365,9 +45087,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44499,9 +45223,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -44523,9 +45249,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Protein - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44613,9 +45341,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -44637,9 +45367,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44683,9 +45415,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44751,9 +45485,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45017,9 +45753,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45261,9 +45999,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45373,9 +46113,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45683,9 +46425,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Protein - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -45707,9 +46451,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46039,9 +46785,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46129,9 +46877,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -46175,9 +46925,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46287,9 +47039,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46641,9 +47395,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46709,9 +47465,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -46733,9 +47491,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46757,9 +47517,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47001,9 +47763,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47069,9 +47833,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -47137,9 +47903,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -47161,9 +47929,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47185,9 +47955,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -47275,9 +48047,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Cell - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -47299,9 +48073,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47499,9 +48275,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -47699,9 +48477,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -47877,9 +48657,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -47967,9 +48749,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48013,9 +48797,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48125,9 +48911,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48149,9 +48937,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -48217,9 +49007,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -48241,9 +49033,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48441,9 +49235,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48597,9 +49393,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48731,9 +49529,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Protein - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -48755,9 +49555,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48801,9 +49603,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -48957,9 +49761,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48981,9 +49787,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49071,9 +49879,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49095,9 +49905,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49273,9 +50085,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -49407,9 +50221,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -49431,9 +50247,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49653,9 +50471,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49743,9 +50563,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -49943,9 +50765,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50209,9 +51033,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50299,9 +51125,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Protein - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50323,9 +51151,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50347,9 +51177,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50635,9 +51467,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50725,9 +51559,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50991,9 +51827,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -51015,9 +51853,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51083,9 +51923,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51107,9 +51949,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -51131,9 +51975,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Protein - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51243,9 +52089,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51487,9 +52335,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51511,9 +52361,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51623,9 +52475,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -51955,9 +52809,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -51979,9 +52835,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -52135,9 +52993,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -52247,9 +53107,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -52513,9 +53375,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -52779,9 +53643,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -52825,9 +53691,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Protein - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -52849,9 +53717,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53291,9 +54161,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53535,9 +54407,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53779,9 +54653,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54155,9 +55031,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54289,9 +55167,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54511,9 +55391,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54821,9 +55703,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -55043,9 +55927,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -55111,9 +55997,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -55267,9 +56155,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -55313,9 +56203,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -55469,9 +56361,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -55823,9 +56717,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' diff --git a/semmeddb/smartapi.yaml b/semmeddb/smartapi.yaml index a296716a..ea76760d 100644 --- a/semmeddb/smartapi.yaml +++ b/semmeddb/smartapi.yaml @@ -3459,9 +3459,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -3483,9 +3485,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -3947,9 +3951,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -3971,9 +3977,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -4215,9 +4223,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -4239,9 +4249,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -4505,9 +4517,11 @@ components: outputs: - id: UMLS semantic: Cell - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -4529,9 +4543,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -4553,9 +4569,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -4577,9 +4595,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5019,9 +5039,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -5043,9 +5065,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5243,9 +5267,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5377,9 +5403,11 @@ components: outputs: - id: UMLS semantic: MolecularActivity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -5401,9 +5429,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5425,9 +5455,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -5449,9 +5481,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -6639,9 +6673,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -6707,9 +6743,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -6731,9 +6769,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -6755,9 +6795,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -6779,9 +6821,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -7265,9 +7309,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -7289,9 +7335,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8061,9 +8109,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8349,9 +8399,11 @@ components: outputs: - id: UMLS semantic: GrossAnatomicalStructure - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8373,9 +8425,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8397,9 +8451,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8421,9 +8477,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8599,9 +8657,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8667,9 +8727,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8691,9 +8753,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8957,9 +9021,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8981,9 +9047,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -9137,9 +9205,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -9161,9 +9231,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -9185,9 +9257,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -9341,9 +9415,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -9563,9 +9639,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -9895,9 +9973,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -10447,9 +10527,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -10471,9 +10553,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -10869,9 +10953,11 @@ components: outputs: - id: UMLS semantic: GrossAnatomicalStructure - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -10893,9 +10979,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -10917,9 +11005,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11007,9 +11097,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -11031,9 +11123,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11209,9 +11303,11 @@ components: outputs: - id: UMLS semantic: Cell - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -11233,9 +11329,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11257,9 +11355,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11281,9 +11381,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -11437,9 +11539,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -11747,9 +11851,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -11837,9 +11943,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -12103,9 +12211,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12127,9 +12237,11 @@ components: outputs: - id: UMLS semantic: Procedure - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -12415,9 +12527,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12439,9 +12553,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -12551,9 +12667,11 @@ components: outputs: - id: UMLS semantic: MolecularActivity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12575,9 +12693,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -12643,9 +12763,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12667,9 +12789,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -12823,9 +12947,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12891,9 +13017,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -13135,9 +13263,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -13159,9 +13289,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -13271,9 +13403,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14021,9 +14155,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14331,9 +14467,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -14509,9 +14647,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14533,9 +14673,11 @@ components: outputs: - id: UMLS semantic: CellularComponent - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -14557,9 +14699,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14735,9 +14879,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15309,9 +15455,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15333,9 +15481,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15555,9 +15705,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15689,9 +15841,11 @@ components: outputs: - id: UMLS semantic: GrossAnatomicalStructure - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15713,9 +15867,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15869,9 +16025,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15893,9 +16051,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15961,9 +16121,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15985,9 +16147,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16361,9 +16525,11 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -16385,9 +16551,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16673,9 +16841,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16697,9 +16867,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16809,9 +16981,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -16833,9 +17007,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16967,9 +17143,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -16991,9 +17169,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17301,9 +17481,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -17325,9 +17507,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17437,9 +17621,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17747,9 +17933,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -17771,9 +17959,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17795,9 +17985,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17819,9 +18011,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17865,9 +18059,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -18153,9 +18349,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -18375,9 +18573,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -18509,9 +18709,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -18533,9 +18735,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -18667,9 +18871,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -18691,9 +18897,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -18847,9 +19055,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -18981,9 +19191,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -19049,9 +19261,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19073,9 +19287,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -19251,9 +19467,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19407,9 +19625,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19563,9 +19783,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -19741,9 +19963,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19897,9 +20121,11 @@ components: outputs: - id: UMLS semantic: CellularComponent - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19921,9 +20147,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -19945,9 +20173,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -20475,9 +20705,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -20653,9 +20885,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -20677,9 +20911,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21031,9 +21267,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21341,9 +21579,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21365,9 +21605,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -21565,9 +21807,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21633,9 +21877,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -21789,9 +22035,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22077,9 +22325,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22255,9 +22505,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22455,9 +22707,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22567,9 +22821,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22877,9 +23133,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22967,9 +23225,11 @@ components: outputs: - id: UMLS semantic: CellularComponent - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22991,9 +23251,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -23015,9 +23277,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -23105,9 +23369,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -23217,9 +23483,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -23263,9 +23531,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -23287,9 +23557,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -23377,9 +23649,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -23643,9 +23917,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -23865,9 +24141,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -23933,9 +24211,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24001,9 +24281,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24135,9 +24417,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24511,9 +24795,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24557,9 +24843,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24691,9 +24979,11 @@ components: outputs: - id: UMLS semantic: Cell - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24715,9 +25005,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24893,9 +25185,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25093,9 +25387,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25117,9 +25413,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25163,9 +25461,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25187,9 +25487,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25321,9 +25623,11 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25345,9 +25649,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25633,9 +25939,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25657,9 +25965,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25703,9 +26013,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25749,9 +26061,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25927,9 +26241,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25951,9 +26267,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25997,9 +26315,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26043,9 +26363,11 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -26067,9 +26389,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26311,9 +26635,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26423,9 +26749,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -26447,9 +26775,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -26559,9 +26889,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -26671,9 +27003,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27113,9 +27447,11 @@ components: outputs: - id: UMLS semantic: Cell - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27137,9 +27473,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27359,9 +27697,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27427,9 +27767,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27583,9 +27925,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27607,9 +27951,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27807,9 +28153,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27875,9 +28223,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27899,9 +28249,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28077,9 +28429,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28101,9 +28455,11 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28147,9 +28503,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28171,9 +28529,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28261,9 +28621,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28285,9 +28647,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28309,9 +28673,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28355,9 +28721,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28423,9 +28791,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28469,9 +28839,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28493,9 +28865,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28583,9 +28957,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28717,9 +29093,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28785,9 +29163,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28875,9 +29255,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28921,9 +29303,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29011,9 +29395,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29123,9 +29509,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29191,9 +29579,11 @@ components: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29215,9 +29605,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29239,9 +29631,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29417,9 +29811,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29463,9 +29859,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29509,9 +29907,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29577,9 +29977,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29865,9 +30267,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30021,9 +30425,11 @@ components: outputs: - id: UMLS semantic: MolecularActivity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -30045,9 +30451,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30289,9 +30697,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30445,9 +30855,11 @@ components: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -30469,9 +30881,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30735,9 +31149,11 @@ components: outputs: - id: UMLS semantic: Cell - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -30759,9 +31175,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30783,9 +31201,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30807,9 +31227,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -30875,9 +31297,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31053,9 +31477,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31363,9 +31789,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -31387,9 +31815,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31433,9 +31863,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -31567,9 +31999,11 @@ components: outputs: - id: UMLS semantic: MolecularActivity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -31591,9 +32025,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31769,9 +32205,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -31925,9 +32363,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32037,9 +32477,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32105,9 +32547,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32283,9 +32727,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32307,9 +32753,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32727,9 +33175,11 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32751,9 +33201,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32819,9 +33271,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32843,9 +33297,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32889,9 +33345,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33001,9 +33459,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -33113,9 +33573,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -33159,9 +33621,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33183,9 +33647,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -33229,9 +33695,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -33385,9 +33853,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -33431,9 +33901,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33477,9 +33949,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -33589,9 +34063,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33657,9 +34133,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33769,9 +34247,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33837,9 +34317,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -34015,9 +34497,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34193,9 +34677,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34283,9 +34769,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34483,9 +34971,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34595,9 +35085,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -35213,9 +35705,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35347,9 +35841,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35459,9 +35955,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35571,9 +36069,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -35595,9 +36095,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35707,9 +36209,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35863,9 +36367,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -35909,9 +36415,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35977,9 +36485,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36023,9 +36533,11 @@ components: outputs: - id: UMLS semantic: MolecularActivity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36047,9 +36559,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36181,9 +36695,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36469,9 +36985,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36581,9 +37099,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36605,9 +37125,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36629,9 +37151,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36829,9 +37353,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36919,9 +37445,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36943,9 +37471,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37055,9 +37585,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37211,9 +37743,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -37389,9 +37923,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37479,9 +38015,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37547,9 +38085,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37747,9 +38287,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -37771,9 +38313,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37795,9 +38339,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37841,9 +38387,11 @@ components: outputs: - id: UMLS semantic: MolecularActivity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -37865,9 +38413,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -38021,9 +38571,11 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -38089,9 +38641,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -38113,9 +38667,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -38291,9 +38847,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -38381,9 +38939,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -38647,9 +39207,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -38825,9 +39387,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39311,9 +39875,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39357,9 +39923,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39381,9 +39949,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39537,9 +40107,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39605,9 +40177,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39629,9 +40203,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39763,9 +40339,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39787,9 +40365,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39855,9 +40435,11 @@ components: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39879,9 +40461,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39947,9 +40531,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39971,9 +40557,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40347,9 +40935,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -40371,9 +40961,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40483,9 +41075,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40507,9 +41101,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -40641,9 +41237,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40665,9 +41263,11 @@ components: outputs: - id: UMLS semantic: MolecularActivity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -40689,9 +41289,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40713,9 +41315,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40869,9 +41473,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40893,9 +41499,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40983,9 +41591,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -41029,9 +41639,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41075,9 +41687,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41363,9 +41977,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41387,9 +42003,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -41411,9 +42029,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41743,9 +42363,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -42031,9 +42653,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -42121,9 +42745,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42211,9 +42837,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -42301,9 +42929,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -42501,9 +43131,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42723,9 +43355,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42747,9 +43381,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42837,9 +43473,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42861,9 +43499,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -42885,9 +43525,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43107,9 +43749,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43219,9 +43863,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -43243,9 +43889,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43333,9 +43981,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43379,9 +44029,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43513,9 +44165,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43537,9 +44191,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43671,9 +44327,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43783,9 +44441,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43829,9 +44489,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -44139,9 +44801,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -44273,9 +44937,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -44297,9 +44963,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44343,9 +45011,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44477,9 +45147,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44655,9 +45327,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44855,9 +45529,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -44879,9 +45555,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -44903,9 +45581,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44927,9 +45607,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44973,9 +45655,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45503,9 +46187,11 @@ components: outputs: - id: UMLS semantic: Cell - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -45527,9 +46213,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45617,9 +46305,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -45773,9 +46463,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -45951,9 +46643,11 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -45975,9 +46669,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46153,9 +46849,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46177,9 +46875,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -46201,9 +46901,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46247,9 +46949,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46271,9 +46975,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46317,9 +47023,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46363,9 +47071,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46783,9 +47493,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -46807,9 +47519,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46875,9 +47589,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47097,9 +47813,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47121,9 +47839,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47321,9 +48041,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47367,9 +48089,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47501,9 +48225,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -47525,9 +48251,11 @@ components: outputs: - id: UMLS semantic: Protein - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47615,9 +48343,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -47639,9 +48369,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47685,9 +48417,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47753,9 +48487,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48019,9 +48755,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48263,9 +49001,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48375,9 +49115,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48685,9 +49427,11 @@ components: outputs: - id: UMLS semantic: Protein - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -48709,9 +49453,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49041,9 +49787,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49131,9 +49879,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -49177,9 +49927,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49289,9 +50041,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49643,9 +50397,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49711,9 +50467,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -49735,9 +50493,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49759,9 +50519,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50003,9 +50765,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50071,9 +50835,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50139,9 +50905,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50163,9 +50931,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50187,9 +50957,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50277,9 +51049,11 @@ components: outputs: - id: UMLS semantic: Cell - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50301,9 +51075,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50501,9 +51277,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50701,9 +51479,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50879,9 +51659,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50969,9 +51751,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51015,9 +51799,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51127,9 +51913,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51151,9 +51939,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -51219,9 +52009,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -51243,9 +52035,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51443,9 +52237,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51599,9 +52395,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51733,9 +52531,11 @@ components: outputs: - id: UMLS semantic: Protein - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -51757,9 +52557,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51803,9 +52605,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -51959,9 +52763,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51983,9 +52789,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -52073,9 +52881,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -52097,9 +52907,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -52275,9 +53087,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -52409,9 +53223,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -52433,9 +53249,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -52655,9 +53473,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -52745,9 +53565,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -52945,9 +53767,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -53211,9 +54035,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53301,9 +54127,11 @@ components: outputs: - id: UMLS semantic: Protein - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -53325,9 +54153,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53349,9 +54179,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53637,9 +54469,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53727,9 +54561,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53993,9 +54829,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -54017,9 +54855,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54085,9 +54925,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54109,9 +54951,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -54133,9 +54977,11 @@ components: outputs: - id: UMLS semantic: Protein - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54245,9 +55091,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54489,9 +55337,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54513,9 +55363,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54625,9 +55477,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -54957,9 +55811,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -54981,9 +55837,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -55137,9 +55995,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -55249,9 +56109,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -55515,9 +56377,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -55781,9 +56645,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -55827,9 +56693,11 @@ components: outputs: - id: UMLS semantic: Protein - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -55851,9 +56719,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -56293,9 +57163,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -56537,9 +57409,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -56781,9 +57655,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -57157,9 +58033,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -57291,9 +58169,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -57513,9 +58393,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -57823,9 +58705,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: downregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -58045,9 +58929,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -58113,9 +58999,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -58269,9 +59157,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: upregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -58315,9 +59205,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -58471,9 +59363,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: regulates + predicate: affects qualifiers: - object_direction_qualifier: upregulated + qualified_predicate: causes + object_aspect_qualifier: "activity or abundance" + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -58825,9 +59719,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: regulated_by + predicate: affected_by qualifiers: - subject_direction_qualifier: downregulated + qualified_predicate: caused_by + subject_aspect_qualifier: "activity or abundance" + subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' From 4e724af0680e1e7acc3acdd454e89c35c0fe7b91 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Thu, 3 Nov 2022 21:47:18 -0700 Subject: [PATCH 30/46] dgidb,semmeddb: use snake_case for qualifier-values confirmed with data-modeling team that this should be done --- dgidb/openapi.yml | 46 +- semmeddb/generated_operations.yaml | 896 ++++++++++++++--------------- semmeddb/smartapi.yaml | 896 ++++++++++++++--------------- 3 files changed, 919 insertions(+), 919 deletions(-) diff --git a/dgidb/openapi.yml b/dgidb/openapi.yml index 12332bcf..60c063c6 100644 --- a/dgidb/openapi.yml +++ b/dgidb/openapi.yml @@ -795,7 +795,7 @@ components: ## for biolink 2.4.8, was using directly_interacts_with (mapping for GAMMA:antibody) predicate: physically_interacts_with qualifiers: - causal_mechanism_qualifier: "antibody inhibition" ## extra since DGIdb labels these as "antibody" + causal_mechanism_qualifier: antibody_inhibition ## extra since DGIdb labels these as "antibody" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -826,7 +826,7 @@ components: ## for biolink 2.4.8, was using directly_interacts_with (mapping for GAMMA:antibody) predicate: physically_interacts_with qualifiers: - causal_mechanism_qualifier: "antibody inhibition" ## extra since DGIdb labels these as "antibody" + causal_mechanism_qualifier: antibody_inhibition ## extra since DGIdb labels these as "antibody" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -927,14 +927,14 @@ components: outputs: - id: NCBIGene semantic: Gene - ## biolink 3.0.3: not sure if all data fits "molecular channel blockage" + ## biolink 3.0.3: not sure if all data fits molecular_channel_blockage ## for biolink 2.4.8, DGIdb:blocker maps to decreases_activity_of predicate: affects qualifiers: qualified_predicate: causes object_aspect_qualifier: activity object_direction_qualifier: decreased - causal_mechanism_qualifier: "molecular channel blockage" + causal_mechanism_qualifier: molecular_channel_blockage source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -971,7 +971,7 @@ components: qualified_predicate: caused_by subject_aspect_qualifier: activity subject_direction_qualifier: decreased - causal_mechanism_qualifier: "molecular channel blockage" + causal_mechanism_qualifier: molecular_channel_blockage source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1074,10 +1074,10 @@ components: semantic: Gene ## for biolink 2.4.8, DGIdb:inhibitor maps to decreases_activity_of predicate: affects - ## uses "activity or abundance" because dgidb definition says decrease of expression or activity + ## uses activity_or_abundance because dgidb definition says decrease of expression or activity qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased causal_mechanism_qualifier: inhibition ## extra since DGIdb labels these as "inhibitor" source: "infores:dgidb" @@ -1109,10 +1109,10 @@ components: semantic: SmallMolecule ## for biolink 2.4.8, DGIdb:inhibitor maps to the inverse of decreases_activity_of predicate: affected_by - ## uses "activity or abundance" because dgidb definition says decrease of expression or activity + ## uses activity_or_abundance because dgidb definition says decrease of expression or activity qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased causal_mechanism_qualifier: inhibition ## extra since DGIdb labels these as "inhibitor" source: "infores:dgidb" @@ -1151,7 +1151,7 @@ components: # qualified_predicate: causes # object_aspect_qualifier: activity # object_direction_qualifier: decreased - # causal_mechanism_qualifier: "negative allosteric modulation" ## extra + # causal_mechanism_qualifier: negative_allosteric_modulation ## extra # source: "infores:dgidb" # response_mapping: # "$ref": "#/components/x-bte-response-mapping/forward" @@ -1185,7 +1185,7 @@ components: # qualified_predicate: caused_by # subject_aspect_qualifier: activity # subject_direction_qualifier: decreased - # causal_mechanism_qualifier: "negative allosteric modulation" ## extra + # causal_mechanism_qualifier: negative_allosteric_modulation ## extra # source: "infores:dgidb" # response_mapping: # "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1221,7 +1221,7 @@ components: qualified_predicate: causes object_aspect_qualifier: activity object_direction_qualifier: decreased - causal_mechanism_qualifier: "inverse agonism" + causal_mechanism_qualifier: inverse_agonism source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -1255,7 +1255,7 @@ components: qualified_predicate: caused_by subject_aspect_qualifier: activity subject_direction_qualifier: decreased - causal_mechanism_qualifier: "inverse agonism" + causal_mechanism_qualifier: inverse_agonism source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1288,9 +1288,9 @@ components: ## could also use "entity regulates entity"? see def: https://dgidb.org/interaction_types ## for biolink 2.4.8, DGIdb:modulator maps to affects_activity_of predicate: affects - ## uses "activity or abundance" because dgidb "negative modulator" definition uses amount or activity + ## uses activity_or_abundance because dgidb "negative modulator" definition uses amount or activity qualifiers: - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance ## no causal_mechanism_qualifier for "modulator" source: "infores:dgidb" response_mapping: @@ -1322,7 +1322,7 @@ components: ## for biolink 2.4.8, DGIdb:modulator maps to the inverse of affects_activity_of predicate: affected_by qualifiers: - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance ## no causal_mechanism_qualifier for "modulator" source: "infores:dgidb" response_mapping: @@ -1356,10 +1356,10 @@ components: # semantic: Gene # ## for biolink 2.4.8, DGIdb:negative_modulator maps to decreases_activity_of # predicate: affects - # ## uses "activity or abundance" because dgidb definition says both + # ## uses activity_or_abundance because dgidb definition says both # qualifiers: # qualified_predicate: causes - # object_aspect_qualifier: "activity or abundance" + # object_aspect_qualifier: activity_or_abundance # object_direction_qualifier: decreased # ## no causal_mechanism_qualifier for "negative modulator" # source: "infores:dgidb" @@ -1393,7 +1393,7 @@ components: # predicate: affected_by # qualifiers: # qualified_predicate: caused_by - # subject_aspect_qualifier: "activity or abundance" + # subject_aspect_qualifier: activity_or_abundance # subject_direction_qualifier: decreased # ## no causal_mechanism_qualifier for "negative modulator" # source: "infores:dgidb" @@ -1560,7 +1560,7 @@ components: semantic: Gene ## biolink 2.4.8: using mapping to GAMMA / CHEMBL.MECHANISM positive_modulator term. using increases_activity_of predicate: affects - ## not using "activity or abundance" because dgidb definition only mentions activity + ## not using activity_or_abundance because dgidb definition only mentions activity qualifiers: qualified_predicate: causes object_aspect_qualifier: activity @@ -1632,10 +1632,10 @@ components: # semantic: Gene # ## biolink 2.4.8: using mapping for GAMMA:suppressor, so using decreases_activity_of # predicate: affects - # ## using "activity or abundance" because the drugbank examples involve both + # ## using activity_or_abundance because the drugbank examples involve both # qualifiers: # qualified_predicate: causes - # object_aspect_qualifier: "activity or abundance" + # object_aspect_qualifier: activity_or_abundance # object_direction_qualifier: decreased # ## no causal_mechanism_qualifier for "suppressor" # source: "infores:dgidb" @@ -1669,7 +1669,7 @@ components: # predicate: affected_by # qualifiers: # qualified_predicate: caused_by - # subject_aspect_qualifier: "activity or abundance" + # subject_aspect_qualifier: activity_or_abundance # subject_direction_qualifier: decreased # ## no causal_mechanism_qualifier for "suppressor" # source: "infores:dgidb" diff --git a/semmeddb/generated_operations.yaml b/semmeddb/generated_operations.yaml index 4a28575e..c2f63c05 100644 --- a/semmeddb/generated_operations.yaml +++ b/semmeddb/generated_operations.yaml @@ -460,7 +460,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -486,7 +486,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -952,7 +952,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -978,7 +978,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -1224,7 +1224,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -1250,7 +1250,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -1518,7 +1518,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -1544,7 +1544,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -1570,7 +1570,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -1596,7 +1596,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -2040,7 +2040,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -2066,7 +2066,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -2268,7 +2268,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -2404,7 +2404,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -2430,7 +2430,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -2456,7 +2456,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -2482,7 +2482,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -3674,7 +3674,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -3744,7 +3744,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -3770,7 +3770,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -3796,7 +3796,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -3822,7 +3822,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -4310,7 +4310,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -4336,7 +4336,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -5110,7 +5110,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -5400,7 +5400,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -5426,7 +5426,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -5452,7 +5452,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -5478,7 +5478,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -5658,7 +5658,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -5728,7 +5728,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -5754,7 +5754,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -6022,7 +6022,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -6048,7 +6048,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -6206,7 +6206,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -6232,7 +6232,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -6258,7 +6258,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -6416,7 +6416,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -6640,7 +6640,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -6974,7 +6974,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -7528,7 +7528,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -7554,7 +7554,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -7954,7 +7954,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -7980,7 +7980,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -8006,7 +8006,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -8098,7 +8098,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -8124,7 +8124,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -8304,7 +8304,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -8330,7 +8330,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -8356,7 +8356,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -8382,7 +8382,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -8540,7 +8540,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -8852,7 +8852,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -8944,7 +8944,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -9212,7 +9212,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -9238,7 +9238,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -9528,7 +9528,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -9554,7 +9554,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -9668,7 +9668,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -9694,7 +9694,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -9764,7 +9764,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -9790,7 +9790,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -9948,7 +9948,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -10018,7 +10018,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -10264,7 +10264,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -10290,7 +10290,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -10404,7 +10404,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -11156,7 +11156,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -11468,7 +11468,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -11648,7 +11648,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -11674,7 +11674,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -11700,7 +11700,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -11880,7 +11880,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -12456,7 +12456,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -12482,7 +12482,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -12706,7 +12706,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -12842,7 +12842,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -12868,7 +12868,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -13026,7 +13026,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -13052,7 +13052,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -13122,7 +13122,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -13148,7 +13148,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -13526,7 +13526,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -13552,7 +13552,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -13842,7 +13842,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -13868,7 +13868,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -13982,7 +13982,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -14008,7 +14008,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -14144,7 +14144,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -14170,7 +14170,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -14482,7 +14482,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -14508,7 +14508,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -14622,7 +14622,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -14934,7 +14934,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -14960,7 +14960,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -14986,7 +14986,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -15012,7 +15012,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -15060,7 +15060,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -15350,7 +15350,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -15574,7 +15574,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -15710,7 +15710,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -15736,7 +15736,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -15872,7 +15872,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -15898,7 +15898,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -16056,7 +16056,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -16192,7 +16192,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -16262,7 +16262,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -16288,7 +16288,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -16468,7 +16468,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -16626,7 +16626,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -16784,7 +16784,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -16964,7 +16964,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -17122,7 +17122,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -17148,7 +17148,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -17174,7 +17174,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -17706,7 +17706,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -17886,7 +17886,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -17912,7 +17912,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -18268,7 +18268,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -18580,7 +18580,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -18606,7 +18606,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -18808,7 +18808,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -18878,7 +18878,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -19036,7 +19036,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -19326,7 +19326,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -19506,7 +19506,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -19708,7 +19708,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -19822,7 +19822,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -20134,7 +20134,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -20226,7 +20226,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -20252,7 +20252,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -20278,7 +20278,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -20370,7 +20370,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -20484,7 +20484,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -20532,7 +20532,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -20558,7 +20558,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -20650,7 +20650,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -20918,7 +20918,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -21142,7 +21142,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -21212,7 +21212,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -21282,7 +21282,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -21418,7 +21418,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -21796,7 +21796,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -21844,7 +21844,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -21980,7 +21980,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -22006,7 +22006,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -22186,7 +22186,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -22388,7 +22388,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -22414,7 +22414,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -22462,7 +22462,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -22488,7 +22488,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -22624,7 +22624,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -22650,7 +22650,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -22940,7 +22940,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -22966,7 +22966,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -23014,7 +23014,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -23062,7 +23062,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -23242,7 +23242,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -23268,7 +23268,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -23316,7 +23316,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -23364,7 +23364,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -23390,7 +23390,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -23636,7 +23636,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -23750,7 +23750,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -23776,7 +23776,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -23890,7 +23890,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -24004,7 +24004,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -24448,7 +24448,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -24474,7 +24474,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -24698,7 +24698,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -24768,7 +24768,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -24926,7 +24926,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -24952,7 +24952,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -25154,7 +25154,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -25224,7 +25224,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -25250,7 +25250,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -25430,7 +25430,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -25456,7 +25456,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -25504,7 +25504,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -25530,7 +25530,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -25622,7 +25622,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -25648,7 +25648,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -25674,7 +25674,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -25722,7 +25722,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -25792,7 +25792,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -25840,7 +25840,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -25866,7 +25866,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -25958,7 +25958,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -26094,7 +26094,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -26164,7 +26164,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -26256,7 +26256,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -26304,7 +26304,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -26396,7 +26396,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -26510,7 +26510,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -26580,7 +26580,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -26606,7 +26606,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -26632,7 +26632,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -26812,7 +26812,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -26860,7 +26860,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -26908,7 +26908,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -26978,7 +26978,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -27268,7 +27268,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -27426,7 +27426,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -27452,7 +27452,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -27698,7 +27698,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -27856,7 +27856,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -27882,7 +27882,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -28150,7 +28150,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -28176,7 +28176,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -28202,7 +28202,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -28228,7 +28228,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -28298,7 +28298,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -28478,7 +28478,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -28790,7 +28790,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -28816,7 +28816,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -28864,7 +28864,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -29000,7 +29000,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -29026,7 +29026,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -29206,7 +29206,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -29364,7 +29364,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -29478,7 +29478,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -29548,7 +29548,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -29728,7 +29728,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -29754,7 +29754,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -30176,7 +30176,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -30202,7 +30202,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -30272,7 +30272,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -30298,7 +30298,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -30346,7 +30346,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -30460,7 +30460,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -30574,7 +30574,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -30622,7 +30622,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -30648,7 +30648,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -30696,7 +30696,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -30854,7 +30854,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -30902,7 +30902,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -30950,7 +30950,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -31064,7 +31064,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -31134,7 +31134,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -31248,7 +31248,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -31318,7 +31318,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -31498,7 +31498,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -31678,7 +31678,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -31770,7 +31770,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -31972,7 +31972,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -32086,7 +32086,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -32706,7 +32706,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -32842,7 +32842,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -32956,7 +32956,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -33070,7 +33070,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -33096,7 +33096,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -33210,7 +33210,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -33368,7 +33368,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -33416,7 +33416,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -33486,7 +33486,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -33534,7 +33534,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -33560,7 +33560,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -33696,7 +33696,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -33986,7 +33986,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -34100,7 +34100,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -34126,7 +34126,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -34152,7 +34152,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -34354,7 +34354,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -34446,7 +34446,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -34472,7 +34472,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -34586,7 +34586,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -34744,7 +34744,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -34924,7 +34924,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -35016,7 +35016,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -35086,7 +35086,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -35288,7 +35288,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -35314,7 +35314,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -35340,7 +35340,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -35388,7 +35388,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -35414,7 +35414,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -35572,7 +35572,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -35642,7 +35642,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -35668,7 +35668,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -35848,7 +35848,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -35940,7 +35940,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -36208,7 +36208,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -36388,7 +36388,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -36876,7 +36876,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -36924,7 +36924,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -36950,7 +36950,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -37108,7 +37108,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -37178,7 +37178,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -37204,7 +37204,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -37340,7 +37340,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -37366,7 +37366,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -37436,7 +37436,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -37462,7 +37462,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -37532,7 +37532,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -37558,7 +37558,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -37936,7 +37936,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -37962,7 +37962,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -38076,7 +38076,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -38102,7 +38102,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -38238,7 +38238,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -38264,7 +38264,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -38290,7 +38290,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -38316,7 +38316,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -38474,7 +38474,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -38500,7 +38500,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -38592,7 +38592,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -38640,7 +38640,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -38688,7 +38688,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -38978,7 +38978,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -39004,7 +39004,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -39030,7 +39030,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -39364,7 +39364,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -39654,7 +39654,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -39746,7 +39746,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -39838,7 +39838,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -39930,7 +39930,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -40132,7 +40132,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -40356,7 +40356,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -40382,7 +40382,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -40474,7 +40474,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -40500,7 +40500,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -40526,7 +40526,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -40750,7 +40750,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -40864,7 +40864,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -40890,7 +40890,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -40982,7 +40982,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -41030,7 +41030,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -41166,7 +41166,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -41192,7 +41192,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -41328,7 +41328,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -41442,7 +41442,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -41490,7 +41490,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -41802,7 +41802,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -41938,7 +41938,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -41964,7 +41964,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -42012,7 +42012,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -42148,7 +42148,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -42328,7 +42328,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -42530,7 +42530,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -42556,7 +42556,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -42582,7 +42582,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -42608,7 +42608,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -42656,7 +42656,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -43188,7 +43188,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -43214,7 +43214,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -43306,7 +43306,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -43464,7 +43464,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -43644,7 +43644,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -43670,7 +43670,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -43850,7 +43850,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -43876,7 +43876,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -43902,7 +43902,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -43950,7 +43950,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -43976,7 +43976,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -44024,7 +44024,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -44072,7 +44072,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -44494,7 +44494,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -44520,7 +44520,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -44590,7 +44590,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -44814,7 +44814,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -44840,7 +44840,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -45042,7 +45042,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -45090,7 +45090,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -45226,7 +45226,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -45252,7 +45252,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -45344,7 +45344,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -45370,7 +45370,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -45418,7 +45418,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -45488,7 +45488,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -45756,7 +45756,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -46002,7 +46002,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -46116,7 +46116,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -46428,7 +46428,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -46454,7 +46454,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -46788,7 +46788,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -46880,7 +46880,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -46928,7 +46928,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -47042,7 +47042,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -47398,7 +47398,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -47468,7 +47468,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -47494,7 +47494,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -47520,7 +47520,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -47766,7 +47766,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -47836,7 +47836,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -47906,7 +47906,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -47932,7 +47932,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -47958,7 +47958,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -48050,7 +48050,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -48076,7 +48076,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -48278,7 +48278,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -48480,7 +48480,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -48660,7 +48660,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -48752,7 +48752,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -48800,7 +48800,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -48914,7 +48914,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -48940,7 +48940,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -49010,7 +49010,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -49036,7 +49036,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -49238,7 +49238,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -49396,7 +49396,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -49532,7 +49532,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -49558,7 +49558,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -49606,7 +49606,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -49764,7 +49764,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -49790,7 +49790,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -49882,7 +49882,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -49908,7 +49908,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -50088,7 +50088,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -50224,7 +50224,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -50250,7 +50250,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -50474,7 +50474,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -50566,7 +50566,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -50768,7 +50768,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -51036,7 +51036,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -51128,7 +51128,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -51154,7 +51154,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -51180,7 +51180,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -51470,7 +51470,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -51562,7 +51562,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -51830,7 +51830,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -51856,7 +51856,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -51926,7 +51926,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -51952,7 +51952,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -51978,7 +51978,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -52092,7 +52092,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -52338,7 +52338,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -52364,7 +52364,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -52478,7 +52478,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -52812,7 +52812,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -52838,7 +52838,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -52996,7 +52996,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -53110,7 +53110,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -53378,7 +53378,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -53646,7 +53646,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -53694,7 +53694,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -53720,7 +53720,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -54164,7 +54164,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -54410,7 +54410,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -54656,7 +54656,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -55034,7 +55034,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -55170,7 +55170,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -55394,7 +55394,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -55706,7 +55706,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -55930,7 +55930,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -56000,7 +56000,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -56158,7 +56158,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -56206,7 +56206,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -56364,7 +56364,7 @@ x-bte-kgs-operations: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -56720,7 +56720,7 @@ x-bte-kgs-operations: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: diff --git a/semmeddb/smartapi.yaml b/semmeddb/smartapi.yaml index ea76760d..7a887c35 100644 --- a/semmeddb/smartapi.yaml +++ b/semmeddb/smartapi.yaml @@ -3462,7 +3462,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -3488,7 +3488,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -3954,7 +3954,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -3980,7 +3980,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -4226,7 +4226,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -4252,7 +4252,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -4520,7 +4520,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -4546,7 +4546,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -4572,7 +4572,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -4598,7 +4598,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -5042,7 +5042,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -5068,7 +5068,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -5270,7 +5270,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -5406,7 +5406,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -5432,7 +5432,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -5458,7 +5458,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -5484,7 +5484,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -6676,7 +6676,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -6746,7 +6746,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -6772,7 +6772,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -6798,7 +6798,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -6824,7 +6824,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -7312,7 +7312,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -7338,7 +7338,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -8112,7 +8112,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -8402,7 +8402,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -8428,7 +8428,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -8454,7 +8454,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -8480,7 +8480,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -8660,7 +8660,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -8730,7 +8730,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -8756,7 +8756,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -9024,7 +9024,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -9050,7 +9050,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -9208,7 +9208,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -9234,7 +9234,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -9260,7 +9260,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -9418,7 +9418,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -9642,7 +9642,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -9976,7 +9976,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -10530,7 +10530,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -10556,7 +10556,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -10956,7 +10956,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -10982,7 +10982,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -11008,7 +11008,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -11100,7 +11100,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -11126,7 +11126,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -11306,7 +11306,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -11332,7 +11332,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -11358,7 +11358,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -11384,7 +11384,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -11542,7 +11542,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -11854,7 +11854,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -11946,7 +11946,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -12214,7 +12214,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -12240,7 +12240,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -12530,7 +12530,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -12556,7 +12556,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -12670,7 +12670,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -12696,7 +12696,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -12766,7 +12766,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -12792,7 +12792,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -12950,7 +12950,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -13020,7 +13020,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -13266,7 +13266,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -13292,7 +13292,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -13406,7 +13406,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -14158,7 +14158,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -14470,7 +14470,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -14650,7 +14650,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -14676,7 +14676,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -14702,7 +14702,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -14882,7 +14882,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -15458,7 +15458,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -15484,7 +15484,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -15708,7 +15708,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -15844,7 +15844,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -15870,7 +15870,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -16028,7 +16028,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -16054,7 +16054,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -16124,7 +16124,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -16150,7 +16150,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -16528,7 +16528,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -16554,7 +16554,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -16844,7 +16844,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -16870,7 +16870,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -16984,7 +16984,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -17010,7 +17010,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -17146,7 +17146,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -17172,7 +17172,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -17484,7 +17484,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -17510,7 +17510,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -17624,7 +17624,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -17936,7 +17936,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -17962,7 +17962,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -17988,7 +17988,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -18014,7 +18014,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -18062,7 +18062,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -18352,7 +18352,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -18576,7 +18576,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -18712,7 +18712,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -18738,7 +18738,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -18874,7 +18874,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -18900,7 +18900,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -19058,7 +19058,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -19194,7 +19194,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -19264,7 +19264,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -19290,7 +19290,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -19470,7 +19470,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -19628,7 +19628,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -19786,7 +19786,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -19966,7 +19966,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -20124,7 +20124,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -20150,7 +20150,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -20176,7 +20176,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -20708,7 +20708,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -20888,7 +20888,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -20914,7 +20914,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -21270,7 +21270,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -21582,7 +21582,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -21608,7 +21608,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -21810,7 +21810,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -21880,7 +21880,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -22038,7 +22038,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -22328,7 +22328,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -22508,7 +22508,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -22710,7 +22710,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -22824,7 +22824,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -23136,7 +23136,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -23228,7 +23228,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -23254,7 +23254,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -23280,7 +23280,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -23372,7 +23372,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -23486,7 +23486,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -23534,7 +23534,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -23560,7 +23560,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -23652,7 +23652,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -23920,7 +23920,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -24144,7 +24144,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -24214,7 +24214,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -24284,7 +24284,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -24420,7 +24420,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -24798,7 +24798,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -24846,7 +24846,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -24982,7 +24982,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -25008,7 +25008,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -25188,7 +25188,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -25390,7 +25390,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -25416,7 +25416,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -25464,7 +25464,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -25490,7 +25490,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -25626,7 +25626,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -25652,7 +25652,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -25942,7 +25942,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -25968,7 +25968,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -26016,7 +26016,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -26064,7 +26064,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -26244,7 +26244,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -26270,7 +26270,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -26318,7 +26318,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -26366,7 +26366,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -26392,7 +26392,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -26638,7 +26638,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -26752,7 +26752,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -26778,7 +26778,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -26892,7 +26892,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -27006,7 +27006,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -27450,7 +27450,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -27476,7 +27476,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -27700,7 +27700,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -27770,7 +27770,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -27928,7 +27928,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -27954,7 +27954,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -28156,7 +28156,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -28226,7 +28226,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -28252,7 +28252,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -28432,7 +28432,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -28458,7 +28458,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -28506,7 +28506,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -28532,7 +28532,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -28624,7 +28624,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -28650,7 +28650,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -28676,7 +28676,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -28724,7 +28724,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -28794,7 +28794,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -28842,7 +28842,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -28868,7 +28868,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -28960,7 +28960,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -29096,7 +29096,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -29166,7 +29166,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -29258,7 +29258,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -29306,7 +29306,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -29398,7 +29398,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -29512,7 +29512,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -29582,7 +29582,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -29608,7 +29608,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -29634,7 +29634,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -29814,7 +29814,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -29862,7 +29862,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -29910,7 +29910,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -29980,7 +29980,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -30270,7 +30270,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -30428,7 +30428,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -30454,7 +30454,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -30700,7 +30700,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -30858,7 +30858,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -30884,7 +30884,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -31152,7 +31152,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -31178,7 +31178,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -31204,7 +31204,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -31230,7 +31230,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -31300,7 +31300,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -31480,7 +31480,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -31792,7 +31792,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -31818,7 +31818,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -31866,7 +31866,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -32002,7 +32002,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -32028,7 +32028,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -32208,7 +32208,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -32366,7 +32366,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -32480,7 +32480,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -32550,7 +32550,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -32730,7 +32730,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -32756,7 +32756,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -33178,7 +33178,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -33204,7 +33204,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -33274,7 +33274,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -33300,7 +33300,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -33348,7 +33348,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -33462,7 +33462,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -33576,7 +33576,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -33624,7 +33624,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -33650,7 +33650,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -33698,7 +33698,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -33856,7 +33856,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -33904,7 +33904,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -33952,7 +33952,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -34066,7 +34066,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -34136,7 +34136,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -34250,7 +34250,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -34320,7 +34320,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -34500,7 +34500,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -34680,7 +34680,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -34772,7 +34772,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -34974,7 +34974,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -35088,7 +35088,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -35708,7 +35708,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -35844,7 +35844,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -35958,7 +35958,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -36072,7 +36072,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -36098,7 +36098,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -36212,7 +36212,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -36370,7 +36370,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -36418,7 +36418,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -36488,7 +36488,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -36536,7 +36536,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -36562,7 +36562,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -36698,7 +36698,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -36988,7 +36988,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -37102,7 +37102,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -37128,7 +37128,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -37154,7 +37154,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -37356,7 +37356,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -37448,7 +37448,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -37474,7 +37474,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -37588,7 +37588,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -37746,7 +37746,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -37926,7 +37926,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -38018,7 +38018,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -38088,7 +38088,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -38290,7 +38290,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -38316,7 +38316,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -38342,7 +38342,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -38390,7 +38390,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -38416,7 +38416,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -38574,7 +38574,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -38644,7 +38644,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -38670,7 +38670,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -38850,7 +38850,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -38942,7 +38942,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -39210,7 +39210,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -39390,7 +39390,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -39878,7 +39878,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -39926,7 +39926,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -39952,7 +39952,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -40110,7 +40110,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -40180,7 +40180,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -40206,7 +40206,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -40342,7 +40342,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -40368,7 +40368,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -40438,7 +40438,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -40464,7 +40464,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -40534,7 +40534,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -40560,7 +40560,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -40938,7 +40938,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -40964,7 +40964,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -41078,7 +41078,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -41104,7 +41104,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -41240,7 +41240,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -41266,7 +41266,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -41292,7 +41292,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -41318,7 +41318,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -41476,7 +41476,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -41502,7 +41502,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -41594,7 +41594,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -41642,7 +41642,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -41690,7 +41690,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -41980,7 +41980,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -42006,7 +42006,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -42032,7 +42032,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -42366,7 +42366,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -42656,7 +42656,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -42748,7 +42748,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -42840,7 +42840,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -42932,7 +42932,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -43134,7 +43134,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -43358,7 +43358,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -43384,7 +43384,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -43476,7 +43476,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -43502,7 +43502,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -43528,7 +43528,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -43752,7 +43752,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -43866,7 +43866,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -43892,7 +43892,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -43984,7 +43984,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -44032,7 +44032,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -44168,7 +44168,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -44194,7 +44194,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -44330,7 +44330,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -44444,7 +44444,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -44492,7 +44492,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -44804,7 +44804,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -44940,7 +44940,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -44966,7 +44966,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -45014,7 +45014,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -45150,7 +45150,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -45330,7 +45330,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -45532,7 +45532,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -45558,7 +45558,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -45584,7 +45584,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -45610,7 +45610,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -45658,7 +45658,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -46190,7 +46190,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -46216,7 +46216,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -46308,7 +46308,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -46466,7 +46466,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -46646,7 +46646,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -46672,7 +46672,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -46852,7 +46852,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -46878,7 +46878,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -46904,7 +46904,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -46952,7 +46952,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -46978,7 +46978,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -47026,7 +47026,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -47074,7 +47074,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -47496,7 +47496,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -47522,7 +47522,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -47592,7 +47592,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -47816,7 +47816,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -47842,7 +47842,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -48044,7 +48044,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -48092,7 +48092,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -48228,7 +48228,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -48254,7 +48254,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -48346,7 +48346,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -48372,7 +48372,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -48420,7 +48420,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -48490,7 +48490,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -48758,7 +48758,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -49004,7 +49004,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -49118,7 +49118,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -49430,7 +49430,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -49456,7 +49456,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -49790,7 +49790,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -49882,7 +49882,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -49930,7 +49930,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -50044,7 +50044,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -50400,7 +50400,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -50470,7 +50470,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -50496,7 +50496,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -50522,7 +50522,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -50768,7 +50768,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -50838,7 +50838,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -50908,7 +50908,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -50934,7 +50934,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -50960,7 +50960,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -51052,7 +51052,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -51078,7 +51078,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -51280,7 +51280,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -51482,7 +51482,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -51662,7 +51662,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -51754,7 +51754,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -51802,7 +51802,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -51916,7 +51916,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -51942,7 +51942,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -52012,7 +52012,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -52038,7 +52038,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -52240,7 +52240,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -52398,7 +52398,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -52534,7 +52534,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -52560,7 +52560,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -52608,7 +52608,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -52766,7 +52766,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -52792,7 +52792,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -52884,7 +52884,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -52910,7 +52910,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -53090,7 +53090,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -53226,7 +53226,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -53252,7 +53252,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -53476,7 +53476,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -53568,7 +53568,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -53770,7 +53770,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -54038,7 +54038,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -54130,7 +54130,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -54156,7 +54156,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -54182,7 +54182,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -54472,7 +54472,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -54564,7 +54564,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -54832,7 +54832,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -54858,7 +54858,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -54928,7 +54928,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -54954,7 +54954,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -54980,7 +54980,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -55094,7 +55094,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -55340,7 +55340,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -55366,7 +55366,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -55480,7 +55480,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -55814,7 +55814,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -55840,7 +55840,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -55998,7 +55998,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -56112,7 +56112,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -56380,7 +56380,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -56648,7 +56648,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -56696,7 +56696,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -56722,7 +56722,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -57166,7 +57166,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -57412,7 +57412,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -57658,7 +57658,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -58036,7 +58036,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -58172,7 +58172,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -58396,7 +58396,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -58708,7 +58708,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: decreased source: infores:semmeddb response_mapping: @@ -58932,7 +58932,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -59002,7 +59002,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -59160,7 +59160,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -59208,7 +59208,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -59366,7 +59366,7 @@ components: predicate: affects qualifiers: qualified_predicate: causes - object_aspect_qualifier: "activity or abundance" + object_aspect_qualifier: activity_or_abundance object_direction_qualifier: increased source: infores:semmeddb response_mapping: @@ -59722,7 +59722,7 @@ components: predicate: affected_by qualifiers: qualified_predicate: caused_by - subject_aspect_qualifier: "activity or abundance" + subject_aspect_qualifier: activity_or_abundance subject_direction_qualifier: decreased source: infores:semmeddb response_mapping: From ddf6c6866bf3102ba1484ab68b3ce23f5ba9231c Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Thu, 10 Nov 2022 17:17:07 -0800 Subject: [PATCH 31/46] semmeddb notebook: update to use qualifiers, biolink 3.0.3 mapping semmeddb associated_with to biolink related_to mapping semmeddb augments and stimulates to biolink affects (obj_aspect: activity_or_abundance, obj_direction: increased) mapping semmeddb inhibits to biolink affects (obj_aspect: activity_or_abundance, obj_direction: decreased) and having correct reverse operations for augments, stimulates, and inhibits --- semmeddb/AutoGen_SEMMEDDB.ipynb | 3178 +++++++++++++++++++++++-------- 1 file changed, 2376 insertions(+), 802 deletions(-) diff --git a/semmeddb/AutoGen_SEMMEDDB.ipynb b/semmeddb/AutoGen_SEMMEDDB.ipynb index addd7922..e97342d0 100755 --- a/semmeddb/AutoGen_SEMMEDDB.ipynb +++ b/semmeddb/AutoGen_SEMMEDDB.ipynb @@ -20,7 +20,7 @@ "When one sees this: \n", "**PAUSE**\n", "\n", - "read the accompanying text that will explain what the developer needs to do before running the code chunks below it\n", + "read the accompanying text that will explain what the developer needs to do before running the code chunks below that text block.\n", "\n", "---\n", "\n", @@ -41,13 +41,14 @@ "metadata": {}, "source": [ "Requirements:\n", - "* get bmt from github (see \"for developers\" instructions [here](https://github.com/biolink/biolink-model-toolkit/#for-developers)). Using release 0.8.10 at the moment. You may need to run the following command after installing to avoid errors when running the code chunk below (importing the module): `pip install linkml-runtime`\n", - "* get ruamel_yaml from [conda-forge](https://anaconda.org/conda-forge/ruamel_yaml). However, the [version from pip](https://yaml.readthedocs.io/en/latest/install.html) should work as well with this code, but you'll have to change the import statement below to say `ruamel.yaml`. \n", + "* get bmt from github (using pip to install). Using release 0.8.12 at the moment.\n", + " * If you encounter errors importing bmt when running the code chunk below, you may need to run this command in your terminal: `pip install linkml-runtime`\n", + "* get ruamel_yaml from [conda-forge](https://anaconda.org/conda-forge/ruamel_yaml). However, the [version from pip](https://yaml.readthedocs.io/en/latest/install.html) should work as well with this code, but you'll have to change the import statement below to import `ruamel.yaml`. \n", "\n", "Files:\n", "* Get SEMMEDDB PREDICATION CSV [here](https://lhncbc.nlm.nih.gov/ii/tools/SemRep_SemMedDB_SKR/SemMedDB_download.html). This notebook was originally made using the version `semmedVER43_2021_R_PREDICATION`\n", "* Get SEMMEDDB SRDEF file needed for interpreting and mapping SEMMED semantic types: \n", - " * download the compressed file [here](https://lhncbc.nlm.nih.gov/semanticnetwork/download.html) or a direct link [here](https://lhncbc.nlm.nih.gov/ii/tools/SemRep_SemMedDB_SKR/SRDEF.txt)\n", + " * download the compressed file [here](https://lhncbc.nlm.nih.gov/semanticnetwork/download.html) or pick the latest version [here](https://lhncbc.nlm.nih.gov/semanticnetwork/SemanticNetworkArchive.html)\n", " * information on the SRDEF file [here](https://www.ncbi.nlm.nih.gov/books/NBK9679/#ch05.sec5.2)" ] }, @@ -57,8 +58,8 @@ "id": "a5ee5aac", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:23:41.784903Z", - "start_time": "2022-08-17T04:23:33.456195Z" + "end_time": "2022-11-10T23:34:43.405558Z", + "start_time": "2022-11-10T23:34:41.727208Z" } }, "outputs": [], @@ -88,6 +89,7 @@ "source": [ "**PAUSE**\n", "\n", + "Review the code chunk below before running it:\n", "* Check and correct the path for `raw_data_location`\n", "* Check that the columns specified in `usecols` and `names` match the columns of the PREDICATION [file](https://lhncbc.nlm.nih.gov/ii/tools/SemRep_SemMedDB_SKR/dbinfo.html). \n", "* Check that the `na_values`, `sep` are correct. One can use a command in Terminal like `head`\n", @@ -100,8 +102,8 @@ "id": "73408978", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:26:02.819523Z", - "start_time": "2022-08-17T04:24:49.607101Z" + "end_time": "2022-11-10T23:35:56.046345Z", + "start_time": "2022-11-10T23:34:43.408006Z" } }, "outputs": [], @@ -122,8 +124,8 @@ "id": "e8150ed6", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:26:26.036753Z", - "start_time": "2022-08-17T04:26:26.027904Z" + "end_time": "2022-11-10T23:35:56.057508Z", + "start_time": "2022-11-10T23:35:56.048410Z" } }, "outputs": [ @@ -148,8 +150,8 @@ "id": "57d2dc4a", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:26:27.441331Z", - "start_time": "2022-08-17T04:26:27.430908Z" + "end_time": "2022-11-10T23:35:56.070671Z", + "start_time": "2022-11-10T23:35:56.060534Z" } }, "outputs": [ @@ -276,8 +278,8 @@ "id": "6c362bfe", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:26:43.290197Z", - "start_time": "2022-08-17T04:26:36.687460Z" + "end_time": "2022-11-10T23:36:02.492976Z", + "start_time": "2022-11-10T23:35:56.072483Z" } }, "outputs": [], @@ -292,8 +294,8 @@ "id": "68a11e89", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:26:44.941523Z", - "start_time": "2022-08-17T04:26:44.938042Z" + "end_time": "2022-11-10T23:36:02.498419Z", + "start_time": "2022-11-10T23:36:02.495007Z" } }, "outputs": [ @@ -318,8 +320,8 @@ "id": "9abae6d5", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:26:47.883151Z", - "start_time": "2022-08-17T04:26:46.301384Z" + "end_time": "2022-11-10T23:36:04.021849Z", + "start_time": "2022-11-10T23:36:02.500261Z" } }, "outputs": [], @@ -344,8 +346,8 @@ "id": "67a2db8e", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:26:59.496585Z", - "start_time": "2022-08-17T04:26:51.694553Z" + "end_time": "2022-11-10T23:36:11.820336Z", + "start_time": "2022-11-10T23:36:04.023580Z" } }, "outputs": [ @@ -422,8 +424,8 @@ "id": "69d37a01", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:27:09.288407Z", - "start_time": "2022-08-17T04:27:09.283371Z" + "end_time": "2022-11-10T23:36:11.826587Z", + "start_time": "2022-11-10T23:36:11.822133Z" } }, "outputs": [ @@ -582,8 +584,8 @@ "id": "26561f10", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:27:19.930826Z", - "start_time": "2022-08-17T04:27:14.342508Z" + "end_time": "2022-11-10T23:36:16.136865Z", + "start_time": "2022-11-10T23:36:11.830313Z" } }, "outputs": [], @@ -601,8 +603,8 @@ "id": "1f18986e", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:27:29.380363Z", - "start_time": "2022-08-17T04:27:21.424565Z" + "end_time": "2022-11-10T23:36:23.990391Z", + "start_time": "2022-11-10T23:36:16.138737Z" } }, "outputs": [ @@ -662,8 +664,8 @@ "id": "09163f4e", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:27:31.713323Z", - "start_time": "2022-08-17T04:27:31.709387Z" + "end_time": "2022-11-10T23:36:23.995861Z", + "start_time": "2022-11-10T23:36:23.992340Z" } }, "outputs": [ @@ -770,8 +772,8 @@ "id": "dec1bcc5", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:27:49.545664Z", - "start_time": "2022-08-17T04:27:49.542085Z" + "end_time": "2022-11-10T23:36:24.002168Z", + "start_time": "2022-11-10T23:36:23.998116Z" } }, "outputs": [], @@ -797,8 +799,8 @@ "id": "0ab643b0", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:28:07.147311Z", - "start_time": "2022-08-17T04:27:51.218284Z" + "end_time": "2022-11-10T23:36:37.983540Z", + "start_time": "2022-11-10T23:36:24.003908Z" } }, "outputs": [], @@ -813,7 +815,7 @@ "id": "a5f3d145", "metadata": {}, "source": [ - "now look at the stats. interesting since the stats from the [official website](https://lhncbc.nlm.nih.gov/semanticnetwork/SemanticNetworkArchive.html) say 127 semantic types and 54 predicates" + "now look at the stats. interesting since the stats from the [official website](https://lhncbc.nlm.nih.gov/semanticnetwork/SemanticNetworkArchive.html) say 127 semantic types and 54 predicates: f we removed half of 54 because we removed negated predicates, then we get 27...so we match the official stats now." ] }, { @@ -822,8 +824,8 @@ "id": "b6244458", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:28:17.646401Z", - "start_time": "2022-08-17T04:28:10.572350Z" + "end_time": "2022-11-10T23:36:45.090297Z", + "start_time": "2022-11-10T23:36:37.985438Z" } }, "outputs": [ @@ -883,8 +885,8 @@ "id": "4184a17f", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:30:18.135800Z", - "start_time": "2022-08-17T04:30:06.277580Z" + "end_time": "2022-11-10T23:36:56.817095Z", + "start_time": "2022-11-10T23:36:45.091656Z" } }, "outputs": [], @@ -898,8 +900,8 @@ "id": "24036b97", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:30:18.876230Z", - "start_time": "2022-08-17T04:30:18.872986Z" + "end_time": "2022-11-10T23:36:56.823118Z", + "start_time": "2022-11-10T23:36:56.819185Z" } }, "outputs": [ @@ -935,8 +937,9 @@ "so we actually only need to use certain semantic types...it depends on how they map to the biolink model\n", "\n", "As a reminder:\n", + "\n", "* Get SEMMEDDB SRDEF file needed for interpreting and mapping SEMMED semantic types: \n", - " * download the compressed file [here](https://lhncbc.nlm.nih.gov/semanticnetwork/download.html) or a direct link [here](https://lhncbc.nlm.nih.gov/ii/tools/SemRep_SemMedDB_SKR/SRDEF.txt)\n", + " * download the compressed file [here](https://lhncbc.nlm.nih.gov/semanticnetwork/download.html) or pick the latest version [here](https://lhncbc.nlm.nih.gov/semanticnetwork/SemanticNetworkArchive.html)\n", " * information on the SRDEF file [here](https://www.ncbi.nlm.nih.gov/books/NBK9679/#ch05.sec5.2)" ] }, @@ -954,8 +957,8 @@ "id": "8d1bbf26", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:30:34.412350Z", - "start_time": "2022-08-17T04:30:34.409783Z" + "end_time": "2022-11-10T23:36:56.827740Z", + "start_time": "2022-11-10T23:36:56.825013Z" } }, "outputs": [], @@ -970,8 +973,8 @@ "id": "8f859145", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:30:35.669572Z", - "start_time": "2022-08-17T04:30:35.655261Z" + "end_time": "2022-11-10T23:36:56.843236Z", + "start_time": "2022-11-10T23:36:56.829554Z" } }, "outputs": [], @@ -995,8 +998,8 @@ "id": "d470fa70", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:30:36.725470Z", - "start_time": "2022-08-17T04:30:36.715781Z" + "end_time": "2022-11-10T23:36:56.854910Z", + "start_time": "2022-11-10T23:36:56.844997Z" } }, "outputs": [ @@ -1098,8 +1101,8 @@ "id": "89c14528", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:30:45.498716Z", - "start_time": "2022-08-17T04:30:45.487607Z" + "end_time": "2022-11-10T23:36:56.868267Z", + "start_time": "2022-11-10T23:36:56.856519Z" } }, "outputs": [ @@ -1243,8 +1246,8 @@ "id": "8c8c04ce", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:30:52.074136Z", - "start_time": "2022-08-17T04:30:52.068772Z" + "end_time": "2022-11-10T23:36:56.876256Z", + "start_time": "2022-11-10T23:36:56.869775Z" } }, "outputs": [ @@ -1324,8 +1327,8 @@ "id": "0400e8e3", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:31:03.058300Z", - "start_time": "2022-08-17T04:31:03.052573Z" + "end_time": "2022-11-10T23:36:56.883393Z", + "start_time": "2022-11-10T23:36:56.878110Z" } }, "outputs": [], @@ -1357,8 +1360,8 @@ "id": "683a1f47", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:31:04.361830Z", - "start_time": "2022-08-17T04:31:04.353180Z" + "end_time": "2022-11-10T23:36:56.893336Z", + "start_time": "2022-11-10T23:36:56.885114Z" } }, "outputs": [ @@ -1500,28 +1503,28 @@ }, { "cell_type": "code", - "execution_count": 26, - "id": "62059226", + "execution_count": 25, + "id": "a7a170a6", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:32:15.539365Z", - "start_time": "2022-08-17T04:32:11.144002Z" + "end_time": "2022-11-10T23:37:00.795816Z", + "start_time": "2022-11-10T23:36:56.895374Z" } }, "outputs": [], "source": [ - "## using biolink 2.4.8\n", - "bmt_tool = Toolkit('https://raw.githubusercontent.com/biolink/biolink-model/v2.4.8/biolink-model.yaml')" + "## using biolink 3.0.3\n", + "bmt_tool = Toolkit('https://raw.githubusercontent.com/biolink/biolink-model/v3.0.3/biolink-model.yaml')" ] }, { "cell_type": "code", - "execution_count": 30, + "execution_count": 26, "id": "4cc1fad9", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:34:53.841871Z", - "start_time": "2022-08-17T04:34:53.838094Z" + "end_time": "2022-11-10T23:37:01.038561Z", + "start_time": "2022-11-10T23:37:00.797345Z" } }, "outputs": [ @@ -1531,7 +1534,7 @@ "'Small Molecule'" ] }, - "execution_count": 30, + "execution_count": 26, "metadata": {}, "output_type": "execute_result" } @@ -1542,12 +1545,12 @@ }, { "cell_type": "code", - "execution_count": 31, + "execution_count": 27, "id": "c2c14436", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:34:59.754633Z", - "start_time": "2022-08-17T04:34:59.744123Z" + "end_time": "2022-11-10T23:37:01.052130Z", + "start_time": "2022-11-10T23:37:01.040451Z" } }, "outputs": [], @@ -1562,12 +1565,12 @@ }, { "cell_type": "code", - "execution_count": 32, + "execution_count": 28, "id": "044843d6", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:35:02.426618Z", - "start_time": "2022-08-17T04:35:02.418113Z" + "end_time": "2022-11-10T23:37:01.068338Z", + "start_time": "2022-11-10T23:37:01.059441Z" } }, "outputs": [ @@ -1711,7 +1714,7 @@ "[136 rows x 4 columns]" ] }, - "execution_count": 32, + "execution_count": 28, "metadata": {}, "output_type": "execute_result" } @@ -1730,12 +1733,12 @@ }, { "cell_type": "code", - "execution_count": 33, + "execution_count": 29, "id": "7fb08392", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:35:14.772266Z", - "start_time": "2022-08-17T04:35:14.767859Z" + "end_time": "2022-11-10T23:37:01.074375Z", + "start_time": "2022-11-10T23:37:01.070031Z" } }, "outputs": [ @@ -1752,7 +1755,7 @@ "{'cnce', 'crbs', 'enty', 'grpa', 'lang', 'phob'}" ] }, - "execution_count": 33, + "execution_count": 29, "metadata": {}, "output_type": "execute_result" } @@ -1764,12 +1767,12 @@ }, { "cell_type": "code", - "execution_count": 34, + "execution_count": 30, "id": "22daf133", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:35:16.780478Z", - "start_time": "2022-08-17T04:35:16.777164Z" + "end_time": "2022-11-10T23:37:01.079466Z", + "start_time": "2022-11-10T23:37:01.076122Z" } }, "outputs": [], @@ -1780,12 +1783,12 @@ }, { "cell_type": "code", - "execution_count": 35, + "execution_count": 31, "id": "86caa9b9", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:35:17.980221Z", - "start_time": "2022-08-17T04:35:17.971845Z" + "end_time": "2022-11-10T23:37:01.089224Z", + "start_time": "2022-11-10T23:37:01.081153Z" } }, "outputs": [ @@ -1929,7 +1932,7 @@ "[130 rows x 4 columns]" ] }, - "execution_count": 35, + "execution_count": 31, "metadata": {}, "output_type": "execute_result" } @@ -1966,12 +1969,12 @@ }, { "cell_type": "code", - "execution_count": 36, + "execution_count": 32, "id": "eb7ea639", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:36:42.215981Z", - "start_time": "2022-08-17T04:36:42.211966Z" + "end_time": "2022-11-10T23:37:01.094282Z", + "start_time": "2022-11-10T23:37:01.090789Z" } }, "outputs": [ @@ -1992,7 +1995,7 @@ " dtype=object)" ] }, - "execution_count": 36, + "execution_count": 32, "metadata": {}, "output_type": "execute_result" } @@ -2004,12 +2007,12 @@ }, { "cell_type": "code", - "execution_count": 77, + "execution_count": 33, "id": "fc902a02", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:54:16.837114Z", - "start_time": "2022-08-17T04:54:16.830079Z" + "end_time": "2022-11-10T23:37:01.102687Z", + "start_time": "2022-11-10T23:37:01.096040Z" } }, "outputs": [ @@ -2042,39 +2045,47 @@ " \n", " \n", " \n", - " 113\n", - " T184\n", - " Sign or Symptom\n", - " sosy\n", - " PhenotypicFeature\n", + " 96\n", + " T114\n", + " Nucleic Acid, Nucleoside, or Nucleotide\n", + " nnon\n", + " NucleicAcidEntity\n", + " \n", + " \n", + " 76\n", + " T086\n", + " Nucleotide Sequence\n", + " nusq\n", + " NucleicAcidEntity\n", " \n", " \n", "\n", "" ], "text/plain": [ - " UI FullName Abbrev BiolinkMapping\n", - "113 T184 Sign or Symptom sosy PhenotypicFeature" + " UI FullName Abbrev BiolinkMapping\n", + "96 T114 Nucleic Acid, Nucleoside, or Nucleotide nnon NucleicAcidEntity\n", + "76 T086 Nucleotide Sequence nusq NucleicAcidEntity" ] }, - "execution_count": 77, + "execution_count": 33, "metadata": {}, "output_type": "execute_result" } ], "source": [ - "SEMMED_entity_types[SEMMED_entity_types['BiolinkMapping'] == 'PhenotypicFeature']\n", + "SEMMED_entity_types[SEMMED_entity_types['BiolinkMapping'] == 'NucleicAcidEntity']\n", "# SEMMED_entity_types[SEMMED_entity_types['BiolinkMapping'].isna()]" ] }, { "cell_type": "code", - "execution_count": 78, + "execution_count": 34, "id": "e641ae5c", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:54:35.495730Z", - "start_time": "2022-08-17T04:54:35.489791Z" + "end_time": "2022-11-10T23:37:01.110880Z", + "start_time": "2022-11-10T23:37:01.104941Z" } }, "outputs": [], @@ -2101,19 +2112,19 @@ "SEMMED_entity_types.loc[\n", " (SEMMED_entity_types['Abbrev'] == 'nnon'),'BiolinkMapping'] = 'SmallMolecule' ## Nucleic Acid, Nucleoside, or Nucleotide\n", "\n", - "## currently mapped to Vitamin, but re-mapping here\n", + "## currently doesn't have a mapping\n", "SEMMED_entity_types.loc[\n", " (SEMMED_entity_types['Abbrev'] == 'vita'),'BiolinkMapping'] = 'SmallMolecule' ## Vitamin" ] }, { "cell_type": "code", - "execution_count": 79, + "execution_count": 35, "id": "a3a9da81", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:54:39.779885Z", - "start_time": "2022-08-17T04:54:39.773713Z" + "end_time": "2022-11-10T23:37:01.118256Z", + "start_time": "2022-11-10T23:37:01.112622Z" } }, "outputs": [], @@ -2190,12 +2201,12 @@ }, { "cell_type": "code", - "execution_count": 80, + "execution_count": 36, "id": "308358e6", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:54:52.233640Z", - "start_time": "2022-08-17T04:54:42.843393Z" + "end_time": "2022-11-10T23:37:09.722837Z", + "start_time": "2022-11-10T23:37:01.119896Z" } }, "outputs": [], @@ -2210,12 +2221,12 @@ }, { "cell_type": "code", - "execution_count": 81, + "execution_count": 37, "id": "67861c2e", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:54:57.850680Z", - "start_time": "2022-08-17T04:54:54.311893Z" + "end_time": "2022-11-10T23:37:13.272563Z", + "start_time": "2022-11-10T23:37:09.724834Z" } }, "outputs": [ @@ -2225,7 +2236,7 @@ "41" ] }, - "execution_count": 81, + "execution_count": 37, "metadata": {}, "output_type": "execute_result" }, @@ -2235,7 +2246,7 @@ "41" ] }, - "execution_count": 81, + "execution_count": 37, "metadata": {}, "output_type": "execute_result" }, @@ -2245,7 +2256,7 @@ "26" ] }, - "execution_count": 81, + "execution_count": 37, "metadata": {}, "output_type": "execute_result" } @@ -2263,12 +2274,12 @@ }, { "cell_type": "code", - "execution_count": 82, + "execution_count": 38, "id": "647e4065", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:55:02.296361Z", - "start_time": "2022-08-17T04:55:02.286678Z" + "end_time": "2022-11-10T23:37:13.283870Z", + "start_time": "2022-11-10T23:37:13.274214Z" } }, "outputs": [ @@ -2679,7 +2690,7 @@ "104 SmallMolecule " ] }, - "execution_count": 82, + "execution_count": 38, "metadata": {}, "output_type": "execute_result" } @@ -2693,27 +2704,27 @@ "id": "f4bf6f43", "metadata": {}, "source": [ - "### getting mappings for predicates" + "### getting mappings for predicates and qualifiers" ] }, { "cell_type": "code", - "execution_count": 83, + "execution_count": 39, "id": "52496738", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:55:09.432579Z", - "start_time": "2022-08-17T04:55:09.427703Z" + "end_time": "2022-11-10T23:37:13.290523Z", + "start_time": "2022-11-10T23:37:13.285751Z" } }, "outputs": [], "source": [ "SEMMED_predicates = srdef[srdef['Record Type (RT)'] == 'RL'].copy()\n", "\n", - "SEMMED_predicates = SEMMED_predicates[['Full Name (STY/RL)', 'Inverse Relation (RIN)'\n", + "SEMMED_predicates = SEMMED_predicates[['Full Name (STY/RL)'\n", " ]].copy()\n", - "SEMMED_predicates.columns = ['SemmedName', 'SemmedInverse']\n", - "SEMMED_predicates.sort_values(by='SemmedName', inplace=True)" + "SEMMED_predicates.columns = ['SemmedPred']\n", + "SEMMED_predicates.sort_values(by='SemmedPred', inplace=True)" ] }, { @@ -2728,12 +2739,12 @@ }, { "cell_type": "code", - "execution_count": 84, + "execution_count": 40, "id": "b05e90f6", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:55:17.098728Z", - "start_time": "2022-08-17T04:55:17.093668Z" + "end_time": "2022-11-10T23:37:13.296784Z", + "start_time": "2022-11-10T23:37:13.292677Z" } }, "outputs": [ @@ -2749,7 +2760,7 @@ " 'stimulates']" ] }, - "execution_count": 84, + "execution_count": 40, "metadata": {}, "output_type": "execute_result" } @@ -2760,7 +2771,7 @@ "missing_preds = list()\n", "\n", "for i in predicates:\n", - " if i.lower() not in set(SEMMED_predicates['SemmedName']):\n", + " if i.lower() not in set(SEMMED_predicates['SemmedPred']):\n", " missing_preds.append(i.lower())\n", "\n", "missing_preds.sort()\n", @@ -2779,75 +2790,75 @@ }, { "cell_type": "code", - "execution_count": 85, + "execution_count": 41, "id": "6a3d217d", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:55:28.347139Z", - "start_time": "2022-08-17T04:55:28.333498Z" + "end_time": "2022-11-10T23:37:13.310439Z", + "start_time": "2022-11-10T23:37:13.298432Z" } }, "outputs": [], "source": [ "## manually add some predicates that are in the data, but not in SRDEF...\n", "\n", - "SEMMED_predicates.loc[len(SEMMED_predicates.index)] = ['administered_to', '']\n", - "SEMMED_predicates.loc[len(SEMMED_predicates.index)] = ['augments', '']\n", + "SEMMED_predicates.loc[len(SEMMED_predicates.index)] = ['administered_to']\n", + "SEMMED_predicates.loc[len(SEMMED_predicates.index)] = ['augments']\n", "## notice that the data doesn't have a hyphen for coexists...even though SRDEF has hyphen for co-occurs_with\n", - "SEMMED_predicates.loc[len(SEMMED_predicates.index)] = ['coexists_with', '']\n", - "SEMMED_predicates.loc[len(SEMMED_predicates.index)] = ['converts_to', '']\n", - "SEMMED_predicates.loc[len(SEMMED_predicates.index)] = ['inhibits', '']\n", - "SEMMED_predicates.loc[len(SEMMED_predicates.index)] = ['predisposes', '']\n", - "SEMMED_predicates.loc[len(SEMMED_predicates.index)] = ['stimulates', '']\n", + "SEMMED_predicates.loc[len(SEMMED_predicates.index)] = ['coexists_with']\n", + "SEMMED_predicates.loc[len(SEMMED_predicates.index)] = ['converts_to']\n", + "SEMMED_predicates.loc[len(SEMMED_predicates.index)] = ['inhibits']\n", + "SEMMED_predicates.loc[len(SEMMED_predicates.index)] = ['predisposes']\n", + "SEMMED_predicates.loc[len(SEMMED_predicates.index)] = ['stimulates']\n", "\n", - "SEMMED_predicates.sort_values(by='SemmedName', inplace=True)" + "SEMMED_predicates.sort_values(by='SemmedPred', inplace=True)" ] }, { "cell_type": "code", - "execution_count": 86, + "execution_count": 42, "id": "ec402da4", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:56:33.778840Z", - "start_time": "2022-08-17T04:56:33.775318Z" + "end_time": "2022-11-10T23:37:13.315520Z", + "start_time": "2022-11-10T23:37:13.312135Z" } }, "outputs": [], "source": [ "## since biolink model doesn't use hyphens\n", - "SEMMED_predicates['SemmedCurie']= ['SEMMEDDB:'+i \n", - " for i in SEMMED_predicates['SemmedName'].str.replace(\"-\", \"\")]" + "SEMMED_predicates['Semmed_in_BM']= ['SEMMEDDB:'+i \n", + " for i in SEMMED_predicates['SemmedPred'].str.replace(\"-\", \"\")]" ] }, { "cell_type": "code", - "execution_count": 93, + "execution_count": 43, "id": "979e0da8", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:57:56.287924Z", - "start_time": "2022-08-17T04:57:56.279145Z" + "end_time": "2022-11-10T23:37:13.330940Z", + "start_time": "2022-11-10T23:37:13.317544Z" } }, "outputs": [], "source": [ "## getting the mapping\n", - "SEMMED_predicates['BiolinkMapping'] = [bmt_tool.get_element_by_mapping(i)\n", - " for i in SEMMED_predicates['SemmedCurie']]\n", + "SEMMED_predicates['BMPred'] = [bmt_tool.get_element_by_mapping(i)\n", + " for i in SEMMED_predicates['Semmed_in_BM']]\n", "\n", "## since the biolink-mapping uses spaces but resources need to use snake_case\n", - "SEMMED_predicates['BiolinkMapping'] = SEMMED_predicates['BiolinkMapping'].str.replace(\" \", \"_\")" + "SEMMED_predicates['BMPred'] = SEMMED_predicates['BMPred'].str.replace(\" \", \"_\")" ] }, { "cell_type": "code", - "execution_count": 94, + "execution_count": 44, "id": "5d7f7944", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:58:02.789227Z", - "start_time": "2022-08-17T04:58:02.778212Z" + "end_time": "2022-11-10T23:37:13.344186Z", + "start_time": "2022-11-10T23:37:13.332653Z" } }, "outputs": [ @@ -2857,7 +2868,7 @@ "26" ] }, - "execution_count": 94, + "execution_count": 44, "metadata": {}, "output_type": "execute_result" }, @@ -2882,192 +2893,165 @@ " \n", " \n", " \n", - " SemmedName\n", - " SemmedInverse\n", - " SemmedCurie\n", - " BiolinkMapping\n", + " SemmedPred\n", + " Semmed_in_BM\n", + " BMPred\n", " \n", " \n", " \n", " \n", " 54\n", " administered_to\n", - " \n", " SEMMEDDB:administered_to\n", " affects\n", " \n", " \n", " 145\n", " affects\n", - " affected_by\n", " SEMMEDDB:affects\n", " affects\n", " \n", " \n", " 160\n", " associated_with\n", - " associated_with\n", " SEMMEDDB:associated_with\n", " associated_with\n", " \n", " \n", " 55\n", " augments\n", - " \n", " SEMMEDDB:augments\n", " entity_positively_regulates_entity\n", " \n", " \n", " 141\n", " causes\n", - " caused_by\n", " SEMMEDDB:causes\n", " causes\n", " \n", " \n", " 56\n", " coexists_with\n", - " \n", " SEMMEDDB:coexists_with\n", " coexists_with\n", " \n", " \n", " 143\n", " complicates\n", - " complicated_by\n", " SEMMEDDB:complicates\n", " exacerbates\n", " \n", " \n", " 57\n", " converts_to\n", - " \n", " SEMMEDDB:converts_to\n", " derives_into\n", " \n", " \n", " 157\n", " diagnoses\n", - " diagnosed_by\n", " SEMMEDDB:diagnoses\n", " diagnoses\n", " \n", " \n", " 140\n", " disrupts\n", - " disrupted_by\n", " SEMMEDDB:disrupts\n", " disrupts\n", " \n", " \n", " 58\n", " inhibits\n", - " \n", " SEMMEDDB:inhibits\n", " entity_negatively_regulates_entity\n", " \n", " \n", " 136\n", " interacts_with\n", - " interacts_with\n", " SEMMEDDB:interacts_with\n", " interacts_with\n", " \n", " \n", " 129\n", " location_of\n", - " has_location\n", " SEMMEDDB:location_of\n", " location_of\n", " \n", " \n", " 144\n", " manifestation_of\n", - " has_manifestation\n", " SEMMEDDB:manifestation_of\n", " manifestation_of\n", " \n", " \n", " 156\n", " measures\n", - " measured_by\n", " SEMMEDDB:measures\n", " quantifier_qualifier\n", " \n", " \n", " 171\n", " method_of\n", - " has_method\n", " SEMMEDDB:method_of\n", " None\n", " \n", " \n", " 146\n", " occurs_in\n", - " has_occurrence\n", " SEMMEDDB:occurs_in\n", " occurs_in\n", " \n", " \n", " 127\n", " part_of\n", - " has_part\n", " SEMMEDDB:part_of\n", " part_of\n", " \n", " \n", " 132\n", " precedes\n", - " follows\n", " SEMMEDDB:precedes\n", " precedes\n", " \n", " \n", " 59\n", " predisposes\n", - " \n", " SEMMEDDB:predisposes\n", " predisposes\n", " \n", " \n", " 142\n", " prevents\n", - " prevented_by\n", " SEMMEDDB:prevents\n", " prevents\n", " \n", " \n", " 134\n", " process_of\n", - " has_process\n", " SEMMEDDB:process_of\n", " occurs_in\n", " \n", " \n", " 138\n", " produces\n", - " produced_by\n", " SEMMEDDB:produces\n", " produces\n", " \n", " \n", " 60\n", " stimulates\n", - " \n", " SEMMEDDB:stimulates\n", " entity_positively_regulates_entity\n", " \n", " \n", " 148\n", " treats\n", - " treated_by\n", " SEMMEDDB:treats\n", " treats\n", " \n", " \n", " 149\n", " uses\n", - " used_by\n", " SEMMEDDB:uses\n", " has_input\n", " \n", @@ -3076,35 +3060,35 @@ "" ], "text/plain": [ - " SemmedName SemmedInverse SemmedCurie \\\n", - "54 administered_to SEMMEDDB:administered_to \n", - "145 affects affected_by SEMMEDDB:affects \n", - "160 associated_with associated_with SEMMEDDB:associated_with \n", - "55 augments SEMMEDDB:augments \n", - "141 causes caused_by SEMMEDDB:causes \n", - "56 coexists_with SEMMEDDB:coexists_with \n", - "143 complicates complicated_by SEMMEDDB:complicates \n", - "57 converts_to SEMMEDDB:converts_to \n", - "157 diagnoses diagnosed_by SEMMEDDB:diagnoses \n", - "140 disrupts disrupted_by SEMMEDDB:disrupts \n", - "58 inhibits SEMMEDDB:inhibits \n", - "136 interacts_with interacts_with SEMMEDDB:interacts_with \n", - "129 location_of has_location SEMMEDDB:location_of \n", - "144 manifestation_of has_manifestation SEMMEDDB:manifestation_of \n", - "156 measures measured_by SEMMEDDB:measures \n", - "171 method_of has_method SEMMEDDB:method_of \n", - "146 occurs_in has_occurrence SEMMEDDB:occurs_in \n", - "127 part_of has_part SEMMEDDB:part_of \n", - "132 precedes follows SEMMEDDB:precedes \n", - "59 predisposes SEMMEDDB:predisposes \n", - "142 prevents prevented_by SEMMEDDB:prevents \n", - "134 process_of has_process SEMMEDDB:process_of \n", - "138 produces produced_by SEMMEDDB:produces \n", - "60 stimulates SEMMEDDB:stimulates \n", - "148 treats treated_by SEMMEDDB:treats \n", - "149 uses used_by SEMMEDDB:uses \n", + " SemmedPred Semmed_in_BM \\\n", + "54 administered_to SEMMEDDB:administered_to \n", + "145 affects SEMMEDDB:affects \n", + "160 associated_with SEMMEDDB:associated_with \n", + "55 augments SEMMEDDB:augments \n", + "141 causes SEMMEDDB:causes \n", + "56 coexists_with SEMMEDDB:coexists_with \n", + "143 complicates SEMMEDDB:complicates \n", + "57 converts_to SEMMEDDB:converts_to \n", + "157 diagnoses SEMMEDDB:diagnoses \n", + "140 disrupts SEMMEDDB:disrupts \n", + "58 inhibits SEMMEDDB:inhibits \n", + "136 interacts_with SEMMEDDB:interacts_with \n", + "129 location_of SEMMEDDB:location_of \n", + "144 manifestation_of SEMMEDDB:manifestation_of \n", + "156 measures SEMMEDDB:measures \n", + "171 method_of SEMMEDDB:method_of \n", + "146 occurs_in SEMMEDDB:occurs_in \n", + "127 part_of SEMMEDDB:part_of \n", + "132 precedes SEMMEDDB:precedes \n", + "59 predisposes SEMMEDDB:predisposes \n", + "142 prevents SEMMEDDB:prevents \n", + "134 process_of SEMMEDDB:process_of \n", + "138 produces SEMMEDDB:produces \n", + "60 stimulates SEMMEDDB:stimulates \n", + "148 treats SEMMEDDB:treats \n", + "149 uses SEMMEDDB:uses \n", "\n", - " BiolinkMapping \n", + " BMPred \n", "54 affects \n", "145 affects \n", "160 associated_with \n", @@ -3133,7 +3117,7 @@ "149 has_input " ] }, - "execution_count": 94, + "execution_count": 44, "metadata": {}, "output_type": "execute_result" } @@ -3143,7 +3127,7 @@ "len(predicates)\n", "pred_compare = [i.lower() for i in predicates]\n", "\n", - "SEMMED_predicates[SEMMED_predicates['SemmedName'].isin(pred_compare)]" + "SEMMED_predicates[SEMMED_predicates['SemmedPred'].isin(pred_compare)]" ] }, { @@ -3153,7 +3137,18 @@ "source": [ "**PAUSE**\n", "\n", - "Previously we changed some mappings for predicates. Now (for biolink 2.4.8) we don't. \n", + "Review the mappings in the table printed by the previous code chunk. \n", + "\n", + "For the biolink 3.0.3 update, we:\n", + "* map semmeddb `associated_with` to biolink's `related_to` because biolink's `associated_with` definition says it must be a statistical relationship, which doesn't seem quite right for what semmeddb is doing. \n", + "* map semmeddb `augments` and `stimulates` to biolink's `affects` with qualifiers: \n", + " * qualified_predicate: causes\n", + " * object_aspect_qualifier: activity_or_abundance\n", + " * object_direction_qualifier: increased\n", + "* map semmeddb `inhibits` to biolink's `affects` with qualifiers: \n", + " * qualified_predicate: causes\n", + " * object_aspect_qualifier: activity_or_abundance\n", + " * object_direction_qualifier: decreased\n", "\n", "Notes:\n", "* keeping the mapping for semmeddb `administered_to` and biolink-model's `affects` but feel like it's not quite right since it's \"trying something out with a goal\", not that it actually does something...see [definition](https://uts.nlm.nih.gov/uts/umls/semantic-network/T154)\n", @@ -3164,50 +3159,115 @@ }, { "cell_type": "code", - "execution_count": 95, + "execution_count": 45, + "id": "d613ec2f", + "metadata": { + "ExecuteTime": { + "end_time": "2022-11-10T23:37:13.348696Z", + "start_time": "2022-11-10T23:37:13.346027Z" + } + }, + "outputs": [], + "source": [ + "## simple change: use biolink's related_to for semmed's associated_with\n", + "SEMMED_predicates.loc[\n", + " (SEMMED_predicates['SemmedPred'] == 'associated_with'),'BMPred'] = 'related_to'" + ] + }, + { + "cell_type": "code", + "execution_count": 46, + "id": "77adf097", + "metadata": { + "ExecuteTime": { + "end_time": "2022-11-10T23:37:13.358866Z", + "start_time": "2022-11-10T23:37:13.350431Z" + } + }, + "outputs": [], + "source": [ + "## complex change: modify table to use qualifiers for semmeddb augments, stimulates, and inhibits\n", + "\n", + "## At the moment, only need the following qualifiers added, to map these predicates\n", + "## QualPred = qualified_predicate\n", + "## ObjAsp = object_aspect_qualifier\n", + "## ObjDirect = object_direction_qualifier\n", + "\n", + "## First, add the columns. Most values will stay blank (None)\n", + "SEMMED_predicates['BMQualPred'] = None \n", + "SEMMED_predicates['BMObjAsp'] = None \n", + "SEMMED_predicates['BMObjDirect'] = None\n", + "\n", + "## Next, mutate the rows for biolink predicates being remapping to predicates + qualifiers\n", + "for index in SEMMED_predicates.index:\n", + " ## semmeddb augments and stimulates should change\n", + " if SEMMED_predicates.loc[index,'BMPred']=='entity_positively_regulates_entity':\n", + " SEMMED_predicates.loc[index,'BMPred'] = 'affects'\n", + " SEMMED_predicates.loc[index,'BMQualPred'] = 'causes'\n", + " SEMMED_predicates.loc[index,'BMObjAsp'] = 'activity_or_abundance'\n", + " SEMMED_predicates.loc[index,'BMObjDirect'] = 'increased'\n", + " ## semmeddb inhibits should change\n", + " elif SEMMED_predicates.loc[index,'BMPred']=='entity_negatively_regulates_entity':\n", + " SEMMED_predicates.loc[index,'BMPred'] = 'affects'\n", + " SEMMED_predicates.loc[index,'BMQualPred'] = 'causes'\n", + " SEMMED_predicates.loc[index,'BMObjAsp'] = 'activity_or_abundance'\n", + " SEMMED_predicates.loc[index,'BMObjDirect'] = 'decreased'" + ] + }, + { + "cell_type": "code", + "execution_count": 47, "id": "80e84505", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:06:51.878275Z", - "start_time": "2022-08-17T05:06:51.875454Z" + "end_time": "2022-11-10T23:37:13.363649Z", + "start_time": "2022-11-10T23:37:13.360690Z" } }, "outputs": [], "source": [ "## only keep the stuff we found biolink mappings for\n", - "SEMMED_predicates = SEMMED_predicates[SEMMED_predicates['BiolinkMapping'].notna()].copy()" + "SEMMED_predicates = SEMMED_predicates[SEMMED_predicates['BMPred'].notna()].copy()" ] }, { "cell_type": "code", - "execution_count": 96, + "execution_count": 48, "id": "52cfbbc4", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:06:59.159565Z", - "start_time": "2022-08-17T05:06:59.155313Z" + "end_time": "2022-11-10T23:37:13.371724Z", + "start_time": "2022-11-10T23:37:13.365595Z" } }, "outputs": [], "source": [ - "## get inverse predicates so generating reverse operations is easier\n", + "## get inverses for basic predicates + qualified_predicates to generate reverse operations\n", "\n", - "SEMMED_predicates['BiolinkInverse'] = [bmt_tool.get_element(i).inverse \n", + "SEMMED_predicates['BMPred_Inv'] = [bmt_tool.get_element(i).inverse \n", " if isinstance(bmt_tool.get_element(i).inverse, str)\n", " else i \n", - " for i in SEMMED_predicates['BiolinkMapping']]\n", + " for i in SEMMED_predicates['BMPred']]\n", + "\n", + "SEMMED_predicates['BMQualPred_Inv'] = [bmt_tool.get_element(i).inverse \n", + " if i and isinstance(bmt_tool.get_element(i).inverse, str)\n", + " else i \n", + " for i in SEMMED_predicates['BMQualPred']]\n", "\n", - "SEMMED_predicates['BiolinkInverse'] = SEMMED_predicates['BiolinkInverse'].str.replace(\" \", \"_\")" + "\n", + "\n", + "SEMMED_predicates['BMPred_Inv'] = SEMMED_predicates['BMPred_Inv'].str.replace(\" \", \"_\")\n", + "SEMMED_predicates['BMQualPred_Inv'] = SEMMED_predicates['BMQualPred_Inv'].str.replace(\" \", \"_\")" ] }, { "cell_type": "code", - "execution_count": 97, + "execution_count": 49, "id": "9718fe3a", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:07:00.562355Z", - "start_time": "2022-08-17T05:07:00.553019Z" + "end_time": "2022-11-10T23:37:13.384904Z", + "start_time": "2022-11-10T23:37:13.373836Z" } }, "outputs": [ @@ -3232,285 +3292,394 @@ " \n", " \n", " \n", - " SemmedName\n", - " SemmedInverse\n", - " SemmedCurie\n", - " BiolinkMapping\n", - " BiolinkInverse\n", + " SemmedPred\n", + " Semmed_in_BM\n", + " BMPred\n", + " BMQualPred\n", + " BMObjAsp\n", + " BMObjDirect\n", + " BMPred_Inv\n", + " BMQualPred_Inv\n", " \n", " \n", " \n", " \n", " 54\n", " administered_to\n", - " \n", " SEMMEDDB:administered_to\n", " affects\n", + " None\n", + " None\n", + " None\n", " affected_by\n", + " None\n", " \n", " \n", " 145\n", " affects\n", - " affected_by\n", " SEMMEDDB:affects\n", " affects\n", + " None\n", + " None\n", + " None\n", " affected_by\n", + " None\n", " \n", " \n", " 160\n", " associated_with\n", - " associated_with\n", " SEMMEDDB:associated_with\n", - " associated_with\n", - " associated_with\n", + " related_to\n", + " None\n", + " None\n", + " None\n", + " related_to\n", + " None\n", " \n", " \n", " 55\n", " augments\n", - " \n", " SEMMEDDB:augments\n", - " entity_positively_regulates_entity\n", - " entity_positively_regulated_by_entity\n", + " affects\n", + " causes\n", + " activity_or_abundance\n", + " increased\n", + " affected_by\n", + " caused_by\n", " \n", " \n", " 141\n", " causes\n", - " caused_by\n", " SEMMEDDB:causes\n", " causes\n", + " None\n", + " None\n", + " None\n", " caused_by\n", + " None\n", " \n", " \n", " 56\n", " coexists_with\n", - " \n", " SEMMEDDB:coexists_with\n", " coexists_with\n", + " None\n", + " None\n", + " None\n", " coexists_with\n", + " None\n", " \n", " \n", " 143\n", " complicates\n", - " complicated_by\n", " SEMMEDDB:complicates\n", " exacerbates\n", + " None\n", + " None\n", + " None\n", " is_exacerbated_by\n", + " None\n", " \n", " \n", " 57\n", " converts_to\n", - " \n", " SEMMEDDB:converts_to\n", " derives_into\n", + " None\n", + " None\n", + " None\n", " derives_from\n", + " None\n", " \n", " \n", " 157\n", " diagnoses\n", - " diagnosed_by\n", " SEMMEDDB:diagnoses\n", " diagnoses\n", + " None\n", + " None\n", + " None\n", " is_diagnosed_by\n", + " None\n", " \n", " \n", " 140\n", " disrupts\n", - " disrupted_by\n", " SEMMEDDB:disrupts\n", " disrupts\n", + " None\n", + " None\n", + " None\n", " disrupted_by\n", + " None\n", " \n", " \n", " 58\n", " inhibits\n", - " \n", " SEMMEDDB:inhibits\n", - " entity_negatively_regulates_entity\n", - " entity_negatively_regulated_by_entity\n", + " affects\n", + " causes\n", + " activity_or_abundance\n", + " decreased\n", + " affected_by\n", + " caused_by\n", " \n", " \n", " 136\n", " interacts_with\n", - " interacts_with\n", " SEMMEDDB:interacts_with\n", " interacts_with\n", + " None\n", + " None\n", + " None\n", " interacts_with\n", + " None\n", " \n", " \n", " 172\n", " isa\n", - " inverse_isa\n", " SEMMEDDB:isa\n", " subclass_of\n", + " None\n", + " None\n", + " None\n", " superclass_of\n", + " None\n", " \n", " \n", " 129\n", " location_of\n", - " has_location\n", " SEMMEDDB:location_of\n", " location_of\n", + " None\n", + " None\n", + " None\n", " located_in\n", + " None\n", " \n", " \n", " 144\n", " manifestation_of\n", - " has_manifestation\n", " SEMMEDDB:manifestation_of\n", " manifestation_of\n", + " None\n", + " None\n", + " None\n", " has_manifestation\n", + " None\n", " \n", " \n", " 156\n", " measures\n", - " measured_by\n", " SEMMEDDB:measures\n", " quantifier_qualifier\n", + " None\n", + " None\n", + " None\n", " quantifier_qualifier\n", + " None\n", " \n", " \n", " 146\n", " occurs_in\n", - " has_occurrence\n", " SEMMEDDB:occurs_in\n", " occurs_in\n", + " None\n", + " None\n", + " None\n", " contains_process\n", + " None\n", " \n", " \n", " 127\n", " part_of\n", - " has_part\n", " SEMMEDDB:part_of\n", " part_of\n", + " None\n", + " None\n", + " None\n", " has_part\n", + " None\n", " \n", " \n", " 132\n", " precedes\n", - " follows\n", " SEMMEDDB:precedes\n", " precedes\n", + " None\n", + " None\n", + " None\n", " preceded_by\n", + " None\n", " \n", " \n", " 59\n", " predisposes\n", - " \n", " SEMMEDDB:predisposes\n", " predisposes\n", + " None\n", + " None\n", + " None\n", " has_predisposing_factor\n", + " None\n", " \n", " \n", " 142\n", " prevents\n", - " prevented_by\n", " SEMMEDDB:prevents\n", " prevents\n", + " None\n", + " None\n", + " None\n", " prevented_by\n", + " None\n", " \n", " \n", " 134\n", " process_of\n", - " has_process\n", " SEMMEDDB:process_of\n", " occurs_in\n", + " None\n", + " None\n", + " None\n", " contains_process\n", + " None\n", " \n", " \n", " 138\n", " produces\n", - " produced_by\n", " SEMMEDDB:produces\n", " produces\n", + " None\n", + " None\n", + " None\n", " produced_by\n", + " None\n", " \n", " \n", " 60\n", " stimulates\n", - " \n", " SEMMEDDB:stimulates\n", - " entity_positively_regulates_entity\n", - " entity_positively_regulated_by_entity\n", + " affects\n", + " causes\n", + " activity_or_abundance\n", + " increased\n", + " affected_by\n", + " caused_by\n", " \n", " \n", " 148\n", " treats\n", - " treated_by\n", " SEMMEDDB:treats\n", " treats\n", + " None\n", + " None\n", + " None\n", " treated_by\n", + " None\n", " \n", " \n", " 149\n", " uses\n", - " used_by\n", " SEMMEDDB:uses\n", " has_input\n", + " None\n", + " None\n", + " None\n", " is_input_of\n", + " None\n", " \n", " \n", "\n", "" ], "text/plain": [ - " SemmedName SemmedInverse SemmedCurie \\\n", - "54 administered_to SEMMEDDB:administered_to \n", - "145 affects affected_by SEMMEDDB:affects \n", - "160 associated_with associated_with SEMMEDDB:associated_with \n", - "55 augments SEMMEDDB:augments \n", - "141 causes caused_by SEMMEDDB:causes \n", - "56 coexists_with SEMMEDDB:coexists_with \n", - "143 complicates complicated_by SEMMEDDB:complicates \n", - "57 converts_to SEMMEDDB:converts_to \n", - "157 diagnoses diagnosed_by SEMMEDDB:diagnoses \n", - "140 disrupts disrupted_by SEMMEDDB:disrupts \n", - "58 inhibits SEMMEDDB:inhibits \n", - "136 interacts_with interacts_with SEMMEDDB:interacts_with \n", - "172 isa inverse_isa SEMMEDDB:isa \n", - "129 location_of has_location SEMMEDDB:location_of \n", - "144 manifestation_of has_manifestation SEMMEDDB:manifestation_of \n", - "156 measures measured_by SEMMEDDB:measures \n", - "146 occurs_in has_occurrence SEMMEDDB:occurs_in \n", - "127 part_of has_part SEMMEDDB:part_of \n", - "132 precedes follows SEMMEDDB:precedes \n", - "59 predisposes SEMMEDDB:predisposes \n", - "142 prevents prevented_by SEMMEDDB:prevents \n", - "134 process_of has_process SEMMEDDB:process_of \n", - "138 produces produced_by SEMMEDDB:produces \n", - "60 stimulates SEMMEDDB:stimulates \n", - "148 treats treated_by SEMMEDDB:treats \n", - "149 uses used_by SEMMEDDB:uses \n", + " SemmedPred Semmed_in_BM BMPred \\\n", + "54 administered_to SEMMEDDB:administered_to affects \n", + "145 affects SEMMEDDB:affects affects \n", + "160 associated_with SEMMEDDB:associated_with related_to \n", + "55 augments SEMMEDDB:augments affects \n", + "141 causes SEMMEDDB:causes causes \n", + "56 coexists_with SEMMEDDB:coexists_with coexists_with \n", + "143 complicates SEMMEDDB:complicates exacerbates \n", + "57 converts_to SEMMEDDB:converts_to derives_into \n", + "157 diagnoses SEMMEDDB:diagnoses diagnoses \n", + "140 disrupts SEMMEDDB:disrupts disrupts \n", + "58 inhibits SEMMEDDB:inhibits affects \n", + "136 interacts_with SEMMEDDB:interacts_with interacts_with \n", + "172 isa SEMMEDDB:isa subclass_of \n", + "129 location_of SEMMEDDB:location_of location_of \n", + "144 manifestation_of SEMMEDDB:manifestation_of manifestation_of \n", + "156 measures SEMMEDDB:measures quantifier_qualifier \n", + "146 occurs_in SEMMEDDB:occurs_in occurs_in \n", + "127 part_of SEMMEDDB:part_of part_of \n", + "132 precedes SEMMEDDB:precedes precedes \n", + "59 predisposes SEMMEDDB:predisposes predisposes \n", + "142 prevents SEMMEDDB:prevents prevents \n", + "134 process_of SEMMEDDB:process_of occurs_in \n", + "138 produces SEMMEDDB:produces produces \n", + "60 stimulates SEMMEDDB:stimulates affects \n", + "148 treats SEMMEDDB:treats treats \n", + "149 uses SEMMEDDB:uses has_input \n", "\n", - " BiolinkMapping BiolinkInverse \n", - "54 affects affected_by \n", - "145 affects affected_by \n", - "160 associated_with associated_with \n", - "55 entity_positively_regulates_entity entity_positively_regulated_by_entity \n", - "141 causes caused_by \n", - "56 coexists_with coexists_with \n", - "143 exacerbates is_exacerbated_by \n", - "57 derives_into derives_from \n", - "157 diagnoses is_diagnosed_by \n", - "140 disrupts disrupted_by \n", - "58 entity_negatively_regulates_entity entity_negatively_regulated_by_entity \n", - "136 interacts_with interacts_with \n", - "172 subclass_of superclass_of \n", - "129 location_of located_in \n", - "144 manifestation_of has_manifestation \n", - "156 quantifier_qualifier quantifier_qualifier \n", - "146 occurs_in contains_process \n", - "127 part_of has_part \n", - "132 precedes preceded_by \n", - "59 predisposes has_predisposing_factor \n", - "142 prevents prevented_by \n", - "134 occurs_in contains_process \n", - "138 produces produced_by \n", - "60 entity_positively_regulates_entity entity_positively_regulated_by_entity \n", - "148 treats treated_by \n", - "149 has_input is_input_of " + " BMQualPred BMObjAsp BMObjDirect BMPred_Inv \\\n", + "54 None None None affected_by \n", + "145 None None None affected_by \n", + "160 None None None related_to \n", + "55 causes activity_or_abundance increased affected_by \n", + "141 None None None caused_by \n", + "56 None None None coexists_with \n", + "143 None None None is_exacerbated_by \n", + "57 None None None derives_from \n", + "157 None None None is_diagnosed_by \n", + "140 None None None disrupted_by \n", + "58 causes activity_or_abundance decreased affected_by \n", + "136 None None None interacts_with \n", + "172 None None None superclass_of \n", + "129 None None None located_in \n", + "144 None None None has_manifestation \n", + "156 None None None quantifier_qualifier \n", + "146 None None None contains_process \n", + "127 None None None has_part \n", + "132 None None None preceded_by \n", + "59 None None None has_predisposing_factor \n", + "142 None None None prevented_by \n", + "134 None None None contains_process \n", + "138 None None None produced_by \n", + "60 causes activity_or_abundance increased affected_by \n", + "148 None None None treated_by \n", + "149 None None None is_input_of \n", + "\n", + " BMQualPred_Inv \n", + "54 None \n", + "145 None \n", + "160 None \n", + "55 caused_by \n", + "141 None \n", + "56 None \n", + "143 None \n", + "57 None \n", + "157 None \n", + "140 None \n", + "58 caused_by \n", + "136 None \n", + "172 None \n", + "129 None \n", + "144 None \n", + "156 None \n", + "146 None \n", + "127 None \n", + "132 None \n", + "59 None \n", + "142 None \n", + "134 None \n", + "138 None \n", + "60 caused_by \n", + "148 None \n", + "149 None " ] }, - "execution_count": 97, + "execution_count": 49, "metadata": {}, "output_type": "execute_result" } @@ -3526,142 +3695,44 @@ "source": [ "**PAUSE**\n", "\n", - "Check if the predicate inverses look correct. \n", + "Check if the predicate inverses look correct. For biolink 3.0.3, we don't need to correct any inverses.\n", "\n", - "Maybe some aren't correct because they don't have an inverse but they are directional...If so, I suggest going back and changing the predicates to ones with inverses. \n", + "* Maybe some aren't correct because they don't have an inverse but they are directional...If so, I suggest going back and changing the predicates to ones with inverses. \n", + "* Some predicates aren't directional (their entry in the biolink-model yaml will have the property `symmetric == true`) so those are identical in either direction...\n", "\n", - "Some predicates aren't directional (their entry in the biolink-model yaml will have the property `symmetric == true`) so those are identical in either direction..." - ] - }, - { - "cell_type": "markdown", - "id": "c616c4ff", - "metadata": {}, - "source": [ - "### prune the data based on what predicates to keep" + "
\n", + "\n", + "However, for the biolink 3.0.3 update, we need more than the inverted predicates...we need the qualifiers for the reverse operations:\n", + "* \"object_\" qualifiers will invert to \"subject_\" qualifiers, but will keep their exact value \n", + "* Already did above: when retrieving the inverted predicates, we also retrieved the inverted qualified_predicates\n" ] }, { "cell_type": "code", - "execution_count": 98, - "id": "50027e5e", + "execution_count": 50, + "id": "6dfd3797", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:15:34.202840Z", - "start_time": "2022-08-17T05:15:34.198977Z" + "end_time": "2022-11-10T23:37:13.389925Z", + "start_time": "2022-11-10T23:37:13.386515Z" } }, "outputs": [], "source": [ - "SEMMED_predicates['NameInDataFormat'] = SEMMED_predicates['SemmedName'].str.upper()\n", - "SEMMED_predicates['NameInDataFormat'] = SEMMED_predicates['NameInDataFormat'].str.replace(\"-\", \"\")" - ] - }, - { - "cell_type": "markdown", - "id": "9c8b1e2b", - "metadata": {}, - "source": [ - "**PAUSE**\n", - "\n", - "Remove predicates in the mapping table, but we don't want to use for associations:\n", - "- no mapping: METHOD_OF\n", - "- already removed from data: ISA\n", - "- don't want to use it as an association predicate after seeing the mapping: \n", - " - MEASURES\n", - " - USES" + "SEMMED_predicates['BMInv_SubjAsp'] = SEMMED_predicates['BMObjAsp'] \n", + "SEMMED_predicates['BMInv_SubjDirect'] = SEMMED_predicates['BMObjDirect'] " ] }, { "cell_type": "code", - "execution_count": 99, - "id": "9079161f", + "execution_count": 51, + "id": "f7239c6f", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:15:49.763128Z", - "start_time": "2022-08-17T05:15:49.757414Z" - } - }, - "outputs": [ - { - "name": "stdout", - "output_type": "stream", - "text": [ - "in data but not in mapping table\n" - ] - }, - { - "data": { - "text/plain": [ - "{'METHOD_OF'}" - ] - }, - "execution_count": 99, - "metadata": {}, - "output_type": "execute_result" - }, - { - "name": "stdout", - "output_type": "stream", - "text": [ - "in mapping file but not in data\n" - ] - }, - { - "data": { - "text/plain": [ - "{'ISA'}" - ] - }, - "execution_count": 99, - "metadata": {}, - "output_type": "execute_result" - } - ], - "source": [ - "print(\"in data but not in mapping table\")\n", - "predicates - set(SEMMED_predicates['NameInDataFormat'])\n", - "\n", - "print(\"in mapping file but not in data\")\n", - "set(SEMMED_predicates['NameInDataFormat']) - predicates" - ] - }, - { - "cell_type": "code", - "execution_count": 100, - "id": "5e25a929", - "metadata": { - "ExecuteTime": { - "end_time": "2022-08-17T05:15:53.998918Z", - "start_time": "2022-08-17T05:15:53.995197Z" - } - }, - "outputs": [ - { - "data": { - "text/plain": [ - "{'ISA', 'MEASURES', 'METHOD_OF', 'USES'}" - ] - }, - "execution_count": 100, - "metadata": {}, - "output_type": "execute_result" - } - ], - "source": [ - "more_removals = {'METHOD_OF', 'ISA', 'MEASURES', 'USES'}\n", - "more_removals" - ] - }, - { - "cell_type": "code", - "execution_count": 101, - "id": "5a46158c", - "metadata": { - "ExecuteTime": { - "end_time": "2022-08-17T05:15:55.177842Z", - "start_time": "2022-08-17T05:15:55.166026Z" - } + "end_time": "2022-11-10T23:37:13.403092Z", + "start_time": "2022-11-10T23:37:13.391641Z" + }, + "scrolled": true }, "outputs": [ { @@ -3685,333 +3756,1468 @@ " \n", " \n", " \n", - " SemmedName\n", - " SemmedInverse\n", - " SemmedCurie\n", - " BiolinkMapping\n", - " BiolinkInverse\n", - " NameInDataFormat\n", + " SemmedPred\n", + " Semmed_in_BM\n", + " BMPred\n", + " BMQualPred\n", + " BMObjAsp\n", + " BMObjDirect\n", + " BMPred_Inv\n", + " BMQualPred_Inv\n", + " BMInv_SubjAsp\n", + " BMInv_SubjDirect\n", " \n", " \n", " \n", " \n", " 54\n", " administered_to\n", - " \n", " SEMMEDDB:administered_to\n", " affects\n", + " None\n", + " None\n", + " None\n", " affected_by\n", - " ADMINISTERED_TO\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 145\n", " affects\n", - " affected_by\n", " SEMMEDDB:affects\n", " affects\n", + " None\n", + " None\n", + " None\n", " affected_by\n", - " AFFECTS\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 160\n", " associated_with\n", - " associated_with\n", " SEMMEDDB:associated_with\n", - " associated_with\n", - " associated_with\n", - " ASSOCIATED_WITH\n", + " related_to\n", + " None\n", + " None\n", + " None\n", + " related_to\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 55\n", " augments\n", - " \n", " SEMMEDDB:augments\n", - " entity_positively_regulates_entity\n", - " entity_positively_regulated_by_entity\n", - " AUGMENTS\n", + " affects\n", + " causes\n", + " activity_or_abundance\n", + " increased\n", + " affected_by\n", + " caused_by\n", + " activity_or_abundance\n", + " increased\n", " \n", " \n", " 141\n", " causes\n", - " caused_by\n", " SEMMEDDB:causes\n", " causes\n", + " None\n", + " None\n", + " None\n", " caused_by\n", - " CAUSES\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 56\n", " coexists_with\n", - " \n", " SEMMEDDB:coexists_with\n", " coexists_with\n", + " None\n", + " None\n", + " None\n", " coexists_with\n", - " COEXISTS_WITH\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 143\n", " complicates\n", - " complicated_by\n", " SEMMEDDB:complicates\n", " exacerbates\n", + " None\n", + " None\n", + " None\n", " is_exacerbated_by\n", - " COMPLICATES\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 57\n", " converts_to\n", - " \n", " SEMMEDDB:converts_to\n", " derives_into\n", + " None\n", + " None\n", + " None\n", " derives_from\n", - " CONVERTS_TO\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 157\n", " diagnoses\n", - " diagnosed_by\n", " SEMMEDDB:diagnoses\n", " diagnoses\n", + " None\n", + " None\n", + " None\n", " is_diagnosed_by\n", - " DIAGNOSES\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 140\n", " disrupts\n", - " disrupted_by\n", " SEMMEDDB:disrupts\n", " disrupts\n", + " None\n", + " None\n", + " None\n", " disrupted_by\n", - " DISRUPTS\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 58\n", " inhibits\n", - " \n", " SEMMEDDB:inhibits\n", - " entity_negatively_regulates_entity\n", - " entity_negatively_regulated_by_entity\n", - " INHIBITS\n", + " affects\n", + " causes\n", + " activity_or_abundance\n", + " decreased\n", + " affected_by\n", + " caused_by\n", + " activity_or_abundance\n", + " decreased\n", " \n", " \n", " 136\n", " interacts_with\n", - " interacts_with\n", " SEMMEDDB:interacts_with\n", " interacts_with\n", + " None\n", + " None\n", + " None\n", " interacts_with\n", - " INTERACTS_WITH\n", + " None\n", + " None\n", + " None\n", + " \n", + " \n", + " 172\n", + " isa\n", + " SEMMEDDB:isa\n", + " subclass_of\n", + " None\n", + " None\n", + " None\n", + " superclass_of\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 129\n", " location_of\n", - " has_location\n", " SEMMEDDB:location_of\n", " location_of\n", + " None\n", + " None\n", + " None\n", " located_in\n", - " LOCATION_OF\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 144\n", " manifestation_of\n", - " has_manifestation\n", " SEMMEDDB:manifestation_of\n", " manifestation_of\n", + " None\n", + " None\n", + " None\n", " has_manifestation\n", - " MANIFESTATION_OF\n", + " None\n", + " None\n", + " None\n", + " \n", + " \n", + " 156\n", + " measures\n", + " SEMMEDDB:measures\n", + " quantifier_qualifier\n", + " None\n", + " None\n", + " None\n", + " quantifier_qualifier\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 146\n", " occurs_in\n", - " has_occurrence\n", " SEMMEDDB:occurs_in\n", " occurs_in\n", + " None\n", + " None\n", + " None\n", " contains_process\n", - " OCCURS_IN\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 127\n", " part_of\n", - " has_part\n", " SEMMEDDB:part_of\n", " part_of\n", + " None\n", + " None\n", + " None\n", " has_part\n", - " PART_OF\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 132\n", " precedes\n", - " follows\n", " SEMMEDDB:precedes\n", " precedes\n", + " None\n", + " None\n", + " None\n", " preceded_by\n", - " PRECEDES\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 59\n", " predisposes\n", - " \n", " SEMMEDDB:predisposes\n", " predisposes\n", + " None\n", + " None\n", + " None\n", " has_predisposing_factor\n", - " PREDISPOSES\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 142\n", " prevents\n", - " prevented_by\n", " SEMMEDDB:prevents\n", " prevents\n", + " None\n", + " None\n", + " None\n", " prevented_by\n", - " PREVENTS\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 134\n", " process_of\n", - " has_process\n", " SEMMEDDB:process_of\n", " occurs_in\n", + " None\n", + " None\n", + " None\n", " contains_process\n", - " PROCESS_OF\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 138\n", " produces\n", - " produced_by\n", " SEMMEDDB:produces\n", " produces\n", + " None\n", + " None\n", + " None\n", " produced_by\n", - " PRODUCES\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 60\n", " stimulates\n", - " \n", " SEMMEDDB:stimulates\n", - " entity_positively_regulates_entity\n", - " entity_positively_regulated_by_entity\n", - " STIMULATES\n", + " affects\n", + " causes\n", + " activity_or_abundance\n", + " increased\n", + " affected_by\n", + " caused_by\n", + " activity_or_abundance\n", + " increased\n", + " \n", + " \n", + " 148\n", + " treats\n", + " SEMMEDDB:treats\n", + " treats\n", + " None\n", + " None\n", + " None\n", + " treated_by\n", + " None\n", + " None\n", + " None\n", + " \n", + " \n", + " 149\n", + " uses\n", + " SEMMEDDB:uses\n", + " has_input\n", + " None\n", + " None\n", + " None\n", + " is_input_of\n", + " None\n", + " None\n", + " None\n", + " \n", + " \n", + "\n", + "" + ], + "text/plain": [ + " SemmedPred Semmed_in_BM BMPred \\\n", + "54 administered_to SEMMEDDB:administered_to affects \n", + "145 affects SEMMEDDB:affects affects \n", + "160 associated_with SEMMEDDB:associated_with related_to \n", + "55 augments SEMMEDDB:augments affects \n", + "141 causes SEMMEDDB:causes causes \n", + "56 coexists_with SEMMEDDB:coexists_with coexists_with \n", + "143 complicates SEMMEDDB:complicates exacerbates \n", + "57 converts_to SEMMEDDB:converts_to derives_into \n", + "157 diagnoses SEMMEDDB:diagnoses diagnoses \n", + "140 disrupts SEMMEDDB:disrupts disrupts \n", + "58 inhibits SEMMEDDB:inhibits affects \n", + "136 interacts_with SEMMEDDB:interacts_with interacts_with \n", + "172 isa SEMMEDDB:isa subclass_of \n", + "129 location_of SEMMEDDB:location_of location_of \n", + "144 manifestation_of SEMMEDDB:manifestation_of manifestation_of \n", + "156 measures SEMMEDDB:measures quantifier_qualifier \n", + "146 occurs_in SEMMEDDB:occurs_in occurs_in \n", + "127 part_of SEMMEDDB:part_of part_of \n", + "132 precedes SEMMEDDB:precedes precedes \n", + "59 predisposes SEMMEDDB:predisposes predisposes \n", + "142 prevents SEMMEDDB:prevents prevents \n", + "134 process_of SEMMEDDB:process_of occurs_in \n", + "138 produces SEMMEDDB:produces produces \n", + "60 stimulates SEMMEDDB:stimulates affects \n", + "148 treats SEMMEDDB:treats treats \n", + "149 uses SEMMEDDB:uses has_input \n", + "\n", + " BMQualPred BMObjAsp BMObjDirect BMPred_Inv \\\n", + "54 None None None affected_by \n", + "145 None None None affected_by \n", + "160 None None None related_to \n", + "55 causes activity_or_abundance increased affected_by \n", + "141 None None None caused_by \n", + "56 None None None coexists_with \n", + "143 None None None is_exacerbated_by \n", + "57 None None None derives_from \n", + "157 None None None is_diagnosed_by \n", + "140 None None None disrupted_by \n", + "58 causes activity_or_abundance decreased affected_by \n", + "136 None None None interacts_with \n", + "172 None None None superclass_of \n", + "129 None None None located_in \n", + "144 None None None has_manifestation \n", + "156 None None None quantifier_qualifier \n", + "146 None None None contains_process \n", + "127 None None None has_part \n", + "132 None None None preceded_by \n", + "59 None None None has_predisposing_factor \n", + "142 None None None prevented_by \n", + "134 None None None contains_process \n", + "138 None None None produced_by \n", + "60 causes activity_or_abundance increased affected_by \n", + "148 None None None treated_by \n", + "149 None None None is_input_of \n", + "\n", + " BMQualPred_Inv BMInv_SubjAsp BMInv_SubjDirect \n", + "54 None None None \n", + "145 None None None \n", + "160 None None None \n", + "55 caused_by activity_or_abundance increased \n", + "141 None None None \n", + "56 None None None \n", + "143 None None None \n", + "57 None None None \n", + "157 None None None \n", + "140 None None None \n", + "58 caused_by activity_or_abundance decreased \n", + "136 None None None \n", + "172 None None None \n", + "129 None None None \n", + "144 None None None \n", + "156 None None None \n", + "146 None None None \n", + "127 None None None \n", + "132 None None None \n", + "59 None None None \n", + "142 None None None \n", + "134 None None None \n", + "138 None None None \n", + "60 caused_by activity_or_abundance increased \n", + "148 None None None \n", + "149 None None None " + ] + }, + "execution_count": 51, + "metadata": {}, + "output_type": "execute_result" + } + ], + "source": [ + "SEMMED_predicates" + ] + }, + { + "cell_type": "markdown", + "id": "c616c4ff", + "metadata": {}, + "source": [ + "### prune the data based on what predicates to keep" + ] + }, + { + "cell_type": "code", + "execution_count": 52, + "id": "50027e5e", + "metadata": { + "ExecuteTime": { + "end_time": "2022-11-10T23:37:13.409862Z", + "start_time": "2022-11-10T23:37:13.404651Z" + } + }, + "outputs": [], + "source": [ + "## can mutate and rename the Semmed_in_BM column (not needed anymore) with the format needed\n", + "\n", + "SEMMED_predicates['Semmed_in_BM'] = SEMMED_predicates['SemmedPred'].str.upper()\n", + "SEMMED_predicates['Semmed_in_BM'] = SEMMED_predicates['Semmed_in_BM'].str.replace(\"-\", \"\")\n", + "SEMMED_predicates.rename(columns = {'Semmed_in_BM':'Semmed_in_Data'}, inplace = True)\n", + "\n", + "## Can remove the SemmedPred column: not needed anymore\n", + "SEMMED_predicates.drop(columns='SemmedPred', inplace=True)" + ] + }, + { + "cell_type": "code", + "execution_count": 53, + "id": "946dd392", + "metadata": { + "ExecuteTime": { + "end_time": "2022-11-10T23:37:13.422172Z", + "start_time": "2022-11-10T23:37:13.411424Z" + } + }, + "outputs": [ + { + "data": { + "text/html": [ + "
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Semmed_in_DataBMPredBMQualPredBMObjAspBMObjDirectBMPred_InvBMQualPred_InvBMInv_SubjAspBMInv_SubjDirect
54ADMINISTERED_TOaffectsNoneNoneNoneaffected_byNoneNoneNone
145AFFECTSaffectsNoneNoneNoneaffected_byNoneNoneNone
160ASSOCIATED_WITHrelated_toNoneNoneNonerelated_toNoneNoneNone
55AUGMENTSaffectscausesactivity_or_abundanceincreasedaffected_bycaused_byactivity_or_abundanceincreased
141CAUSEScausesNoneNoneNonecaused_byNoneNoneNone
56COEXISTS_WITHcoexists_withNoneNoneNonecoexists_withNoneNoneNone
143COMPLICATESexacerbatesNoneNoneNoneis_exacerbated_byNoneNoneNone
57CONVERTS_TOderives_intoNoneNoneNonederives_fromNoneNoneNone
157DIAGNOSESdiagnosesNoneNoneNoneis_diagnosed_byNoneNoneNone
140DISRUPTSdisruptsNoneNoneNonedisrupted_byNoneNoneNone
58INHIBITSaffectscausesactivity_or_abundancedecreasedaffected_bycaused_byactivity_or_abundancedecreased
136INTERACTS_WITHinteracts_withNoneNoneNoneinteracts_withNoneNoneNone
172ISAsubclass_ofNoneNoneNonesuperclass_ofNoneNoneNone
129LOCATION_OFlocation_ofNoneNoneNonelocated_inNoneNoneNone
144MANIFESTATION_OFmanifestation_ofNoneNoneNonehas_manifestationNoneNoneNone
156MEASURESquantifier_qualifierNoneNoneNonequantifier_qualifierNoneNoneNone
146OCCURS_INoccurs_inNoneNoneNonecontains_processNoneNoneNone
127PART_OFpart_ofNoneNoneNonehas_partNoneNoneNone
132PRECEDESprecedesNoneNoneNonepreceded_byNoneNoneNone
59PREDISPOSESpredisposesNoneNoneNonehas_predisposing_factorNoneNoneNone
142PREVENTSpreventsNoneNoneNoneprevented_byNoneNoneNone
134PROCESS_OFoccurs_inNoneNoneNonecontains_processNoneNoneNone
138PRODUCESproducesNoneNoneNoneproduced_byNoneNoneNone
60STIMULATESaffectscausesactivity_or_abundanceincreasedaffected_bycaused_byactivity_or_abundanceincreased
148TREATStreatsNoneNoneNonetreated_byNoneNoneNone
149USEShas_inputNoneNoneNoneis_input_ofNoneNoneNone
\n", + "
" + ], + "text/plain": [ + " Semmed_in_Data BMPred BMQualPred BMObjAsp \\\n", + "54 ADMINISTERED_TO affects None None \n", + "145 AFFECTS affects None None \n", + "160 ASSOCIATED_WITH related_to None None \n", + "55 AUGMENTS affects causes activity_or_abundance \n", + "141 CAUSES causes None None \n", + "56 COEXISTS_WITH coexists_with None None \n", + "143 COMPLICATES exacerbates None None \n", + "57 CONVERTS_TO derives_into None None \n", + "157 DIAGNOSES diagnoses None None \n", + "140 DISRUPTS disrupts None None \n", + "58 INHIBITS affects causes activity_or_abundance \n", + "136 INTERACTS_WITH interacts_with None None \n", + "172 ISA subclass_of None None \n", + "129 LOCATION_OF location_of None None \n", + "144 MANIFESTATION_OF manifestation_of None None \n", + "156 MEASURES quantifier_qualifier None None \n", + "146 OCCURS_IN occurs_in None None \n", + "127 PART_OF part_of None None \n", + "132 PRECEDES precedes None None \n", + "59 PREDISPOSES predisposes None None \n", + "142 PREVENTS prevents None None \n", + "134 PROCESS_OF occurs_in None None \n", + "138 PRODUCES produces None None \n", + "60 STIMULATES affects causes activity_or_abundance \n", + "148 TREATS treats None None \n", + "149 USES has_input None None \n", + "\n", + " BMObjDirect BMPred_Inv BMQualPred_Inv \\\n", + "54 None affected_by None \n", + "145 None affected_by None \n", + "160 None related_to None \n", + "55 increased affected_by caused_by \n", + "141 None caused_by None \n", + "56 None coexists_with None \n", + "143 None is_exacerbated_by None \n", + "57 None derives_from None \n", + "157 None is_diagnosed_by None \n", + "140 None disrupted_by None \n", + "58 decreased affected_by caused_by \n", + "136 None interacts_with None \n", + "172 None superclass_of None \n", + "129 None located_in None \n", + "144 None has_manifestation None \n", + "156 None quantifier_qualifier None \n", + "146 None contains_process None \n", + "127 None has_part None \n", + "132 None preceded_by None \n", + "59 None has_predisposing_factor None \n", + "142 None prevented_by None \n", + "134 None contains_process None \n", + "138 None produced_by None \n", + "60 increased affected_by caused_by \n", + "148 None treated_by None \n", + "149 None is_input_of None \n", + "\n", + " BMInv_SubjAsp BMInv_SubjDirect \n", + "54 None None \n", + "145 None None \n", + "160 None None \n", + "55 activity_or_abundance increased \n", + "141 None None \n", + "56 None None \n", + "143 None None \n", + "57 None None \n", + "157 None None \n", + "140 None None \n", + "58 activity_or_abundance decreased \n", + "136 None None \n", + "172 None None \n", + "129 None None \n", + "144 None None \n", + "156 None None \n", + "146 None None \n", + "127 None None \n", + "132 None None \n", + "59 None None \n", + "142 None None \n", + "134 None None \n", + "138 None None \n", + "60 activity_or_abundance increased \n", + "148 None None \n", + "149 None None " + ] + }, + "execution_count": 53, + "metadata": {}, + "output_type": "execute_result" + } + ], + "source": [ + "SEMMED_predicates" + ] + }, + { + "cell_type": "markdown", + "id": "9c8b1e2b", + "metadata": {}, + "source": [ + "**PAUSE**\n", + "\n", + "Remove predicates in the mapping table, but we don't want to use for associations:\n", + "- no mapping: METHOD_OF\n", + "- already removed from data: ISA\n", + "- don't want to use it as an association predicate after seeing the mapping: \n", + " - MEASURES\n", + " - USES" + ] + }, + { + "cell_type": "code", + "execution_count": 54, + "id": "9079161f", + "metadata": { + "ExecuteTime": { + "end_time": "2022-11-10T23:37:13.428747Z", + "start_time": "2022-11-10T23:37:13.423619Z" + } + }, + "outputs": [ + { + "name": "stdout", + "output_type": "stream", + "text": [ + "in data but not in mapping table\n" + ] + }, + { + "data": { + "text/plain": [ + "{'METHOD_OF'}" + ] + }, + "execution_count": 54, + "metadata": {}, + "output_type": "execute_result" + }, + { + "name": "stdout", + "output_type": "stream", + "text": [ + "in mapping file but not in data\n" + ] + }, + { + "data": { + "text/plain": [ + "{'ISA'}" + ] + }, + "execution_count": 54, + "metadata": {}, + "output_type": "execute_result" + } + ], + "source": [ + "print(\"in data but not in mapping table\")\n", + "predicates - set(SEMMED_predicates['Semmed_in_Data'])\n", + "\n", + "print(\"in mapping file but not in data\")\n", + "set(SEMMED_predicates['Semmed_in_Data']) - predicates" + ] + }, + { + "cell_type": "code", + "execution_count": 55, + "id": "5e25a929", + "metadata": { + "ExecuteTime": { + "end_time": "2022-11-10T23:37:13.433574Z", + "start_time": "2022-11-10T23:37:13.430697Z" + } + }, + "outputs": [ + { + "data": { + "text/plain": [ + "{'ISA', 'MEASURES', 'METHOD_OF', 'USES'}" + ] + }, + "execution_count": 55, + "metadata": {}, + "output_type": "execute_result" + } + ], + "source": [ + "more_removals = {'METHOD_OF', 'ISA', 'MEASURES', 'USES'}\n", + "more_removals" + ] + }, + { + "cell_type": "code", + "execution_count": 56, + "id": "5a46158c", + "metadata": { + "ExecuteTime": { + "end_time": "2022-11-10T23:37:13.447071Z", + "start_time": "2022-11-10T23:37:13.435085Z" + } + }, + "outputs": [ + { + "data": { + "text/html": [ + "
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Semmed_in_DataBMPredBMQualPredBMObjAspBMObjDirectBMPred_InvBMQualPred_InvBMInv_SubjAspBMInv_SubjDirect
54ADMINISTERED_TOaffectsNoneNoneNoneaffected_byNoneNoneNone
145AFFECTSaffectsNoneNoneNoneaffected_byNoneNoneNone
160ASSOCIATED_WITHrelated_toNoneNoneNonerelated_toNoneNoneNone
55AUGMENTSaffectscausesactivity_or_abundanceincreasedaffected_bycaused_byactivity_or_abundanceincreased
141CAUSEScausesNoneNoneNonecaused_byNoneNoneNone
56COEXISTS_WITHcoexists_withNoneNoneNonecoexists_withNoneNoneNone
143COMPLICATESexacerbatesNoneNoneNoneis_exacerbated_byNoneNoneNone
57CONVERTS_TOderives_intoNoneNoneNonederives_fromNoneNoneNone
157DIAGNOSESdiagnosesNoneNoneNoneis_diagnosed_byNoneNoneNone
140DISRUPTSdisruptsNoneNoneNonedisrupted_byNoneNoneNone
58INHIBITSaffectscausesactivity_or_abundancedecreasedaffected_bycaused_byactivity_or_abundancedecreased
136INTERACTS_WITHinteracts_withNoneNoneNoneinteracts_withNoneNoneNone
129LOCATION_OFlocation_ofNoneNoneNonelocated_inNoneNoneNone
144MANIFESTATION_OFmanifestation_ofNoneNoneNonehas_manifestationNoneNoneNone
146OCCURS_INoccurs_inNoneNoneNonecontains_processNoneNoneNone
127PART_OFpart_ofNoneNoneNonehas_partNoneNoneNone
132PRECEDESprecedesNoneNoneNonepreceded_byNoneNoneNone
59PREDISPOSESpredisposesNoneNoneNonehas_predisposing_factorNoneNoneNone
142PREVENTSpreventsNoneNoneNoneprevented_byNoneNoneNone
134PROCESS_OFoccurs_inNoneNoneNonecontains_processNoneNoneNone
138PRODUCESproducesNoneNoneNoneproduced_byNoneNoneNone
60STIMULATESaffectscausesactivity_or_abundanceincreasedaffected_bycaused_byactivity_or_abundanceincreased
148TREATStreatsNoneNoneNonetreated_bySEMMEDDB:treatstreatstreated_byTREATSNoneNoneNone
\n", "
" ], "text/plain": [ - " SemmedName SemmedInverse SemmedCurie \\\n", - "54 administered_to SEMMEDDB:administered_to \n", - "145 affects affected_by SEMMEDDB:affects \n", - "160 associated_with associated_with SEMMEDDB:associated_with \n", - "55 augments SEMMEDDB:augments \n", - "141 causes caused_by SEMMEDDB:causes \n", - "56 coexists_with SEMMEDDB:coexists_with \n", - "143 complicates complicated_by SEMMEDDB:complicates \n", - "57 converts_to SEMMEDDB:converts_to \n", - "157 diagnoses diagnosed_by SEMMEDDB:diagnoses \n", - "140 disrupts disrupted_by SEMMEDDB:disrupts \n", - "58 inhibits SEMMEDDB:inhibits \n", - "136 interacts_with interacts_with SEMMEDDB:interacts_with \n", - "129 location_of has_location SEMMEDDB:location_of \n", - "144 manifestation_of has_manifestation SEMMEDDB:manifestation_of \n", - "146 occurs_in has_occurrence SEMMEDDB:occurs_in \n", - "127 part_of has_part SEMMEDDB:part_of \n", - "132 precedes follows SEMMEDDB:precedes \n", - "59 predisposes SEMMEDDB:predisposes \n", - "142 prevents prevented_by SEMMEDDB:prevents \n", - "134 process_of has_process SEMMEDDB:process_of \n", - "138 produces produced_by SEMMEDDB:produces \n", - "60 stimulates SEMMEDDB:stimulates \n", - "148 treats treated_by SEMMEDDB:treats \n", + " Semmed_in_Data BMPred BMQualPred BMObjAsp \\\n", + "54 ADMINISTERED_TO affects None None \n", + "145 AFFECTS affects None None \n", + "160 ASSOCIATED_WITH related_to None None \n", + "55 AUGMENTS affects causes activity_or_abundance \n", + "141 CAUSES causes None None \n", + "56 COEXISTS_WITH coexists_with None None \n", + "143 COMPLICATES exacerbates None None \n", + "57 CONVERTS_TO derives_into None None \n", + "157 DIAGNOSES diagnoses None None \n", + "140 DISRUPTS disrupts None None \n", + "58 INHIBITS affects causes activity_or_abundance \n", + "136 INTERACTS_WITH interacts_with None None \n", + "129 LOCATION_OF location_of None None \n", + "144 MANIFESTATION_OF manifestation_of None None \n", + "146 OCCURS_IN occurs_in None None \n", + "127 PART_OF part_of None None \n", + "132 PRECEDES precedes None None \n", + "59 PREDISPOSES predisposes None None \n", + "142 PREVENTS prevents None None \n", + "134 PROCESS_OF occurs_in None None \n", + "138 PRODUCES produces None None \n", + "60 STIMULATES affects causes activity_or_abundance \n", + "148 TREATS treats None None \n", "\n", - " BiolinkMapping \\\n", - "54 affects \n", - "145 affects \n", - "160 associated_with \n", - "55 entity_positively_regulates_entity \n", - "141 causes \n", - "56 coexists_with \n", - "143 exacerbates \n", - "57 derives_into \n", - "157 diagnoses \n", - "140 disrupts \n", - "58 entity_negatively_regulates_entity \n", - "136 interacts_with \n", - "129 location_of \n", - "144 manifestation_of \n", - "146 occurs_in \n", - "127 part_of \n", - "132 precedes \n", - "59 predisposes \n", - "142 prevents \n", - "134 occurs_in \n", - "138 produces \n", - "60 entity_positively_regulates_entity \n", - "148 treats \n", + " BMObjDirect BMPred_Inv BMQualPred_Inv \\\n", + "54 None affected_by None \n", + "145 None affected_by None \n", + "160 None related_to None \n", + "55 increased affected_by caused_by \n", + "141 None caused_by None \n", + "56 None coexists_with None \n", + "143 None is_exacerbated_by None \n", + "57 None derives_from None \n", + "157 None is_diagnosed_by None \n", + "140 None disrupted_by None \n", + "58 decreased affected_by caused_by \n", + "136 None interacts_with None \n", + "129 None located_in None \n", + "144 None has_manifestation None \n", + "146 None contains_process None \n", + "127 None has_part None \n", + "132 None preceded_by None \n", + "59 None has_predisposing_factor None \n", + "142 None prevented_by None \n", + "134 None contains_process None \n", + "138 None produced_by None \n", + "60 increased affected_by caused_by \n", + "148 None treated_by None \n", "\n", - " BiolinkInverse NameInDataFormat \n", - "54 affected_by ADMINISTERED_TO \n", - "145 affected_by AFFECTS \n", - "160 associated_with ASSOCIATED_WITH \n", - "55 entity_positively_regulated_by_entity AUGMENTS \n", - "141 caused_by CAUSES \n", - "56 coexists_with COEXISTS_WITH \n", - "143 is_exacerbated_by COMPLICATES \n", - "57 derives_from CONVERTS_TO \n", - "157 is_diagnosed_by DIAGNOSES \n", - "140 disrupted_by DISRUPTS \n", - "58 entity_negatively_regulated_by_entity INHIBITS \n", - "136 interacts_with INTERACTS_WITH \n", - "129 located_in LOCATION_OF \n", - "144 has_manifestation MANIFESTATION_OF \n", - "146 contains_process OCCURS_IN \n", - "127 has_part PART_OF \n", - "132 preceded_by PRECEDES \n", - "59 has_predisposing_factor PREDISPOSES \n", - "142 prevented_by PREVENTS \n", - "134 contains_process PROCESS_OF \n", - "138 produced_by PRODUCES \n", - "60 entity_positively_regulated_by_entity STIMULATES \n", - "148 treated_by TREATS " + " BMInv_SubjAsp BMInv_SubjDirect \n", + "54 None None \n", + "145 None None \n", + "160 None None \n", + "55 activity_or_abundance increased \n", + "141 None None \n", + "56 None None \n", + "143 None None \n", + "57 None None \n", + "157 None None \n", + "140 None None \n", + "58 activity_or_abundance decreased \n", + "136 None None \n", + "129 None None \n", + "144 None None \n", + "146 None None \n", + "127 None None \n", + "132 None None \n", + "59 None None \n", + "142 None None \n", + "134 None None \n", + "138 None None \n", + "60 activity_or_abundance increased \n", + "148 None None " ] }, - "execution_count": 101, + "execution_count": 56, "metadata": {}, "output_type": "execute_result" }, { "data": { "text/plain": [ - "(23, 6)" + "(23, 9)" ] }, - "execution_count": 101, + "execution_count": 56, "metadata": {}, "output_type": "execute_result" } ], "source": [ "## remove this set from the SEMMED_predicates table\n", - "SEMMED_predicates = SEMMED_predicates[~ SEMMED_predicates['NameInDataFormat'].isin(more_removals)]\n", + "SEMMED_predicates = SEMMED_predicates[~ SEMMED_predicates['Semmed_in_Data'].isin(more_removals)]\n", "SEMMED_predicates\n", "SEMMED_predicates.shape" ] }, { "cell_type": "code", - "execution_count": 102, + "execution_count": 57, "id": "64cacd52", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:03.105144Z", - "start_time": "2022-08-17T05:16:01.132005Z" + "end_time": "2022-11-10T23:37:15.409550Z", + "start_time": "2022-11-10T23:37:13.448622Z" } }, "outputs": [], @@ -4022,12 +5228,12 @@ }, { "cell_type": "code", - "execution_count": 103, + "execution_count": 58, "id": "530e3631", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:08.113694Z", - "start_time": "2022-08-17T05:16:04.647152Z" + "end_time": "2022-11-10T23:37:18.841172Z", + "start_time": "2022-11-10T23:37:15.411528Z" } }, "outputs": [ @@ -4037,7 +5243,7 @@ "41" ] }, - "execution_count": 103, + "execution_count": 58, "metadata": {}, "output_type": "execute_result" }, @@ -4047,7 +5253,7 @@ "41" ] }, - "execution_count": 103, + "execution_count": 58, "metadata": {}, "output_type": "execute_result" }, @@ -4057,7 +5263,7 @@ "23" ] }, - "execution_count": 103, + "execution_count": 58, "metadata": {}, "output_type": "execute_result" } @@ -4070,7 +5276,7 @@ "\n", "len(subject_semtypes) ## was 41, still 41 (expected)\n", "len(object_semtypes) ## was 41, still 41 (expected)\n", - "len(predicates) ## was 26, now 23: decreased by 3 (expected)" + "len(predicates) ## was 26, now 23: decreased by 3 (expected: ISA was already removed earlier)" ] }, { @@ -4083,12 +5289,12 @@ }, { "cell_type": "code", - "execution_count": 104, + "execution_count": 59, "id": "863543b6", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:17.639553Z", - "start_time": "2022-08-17T05:16:12.431359Z" + "end_time": "2022-11-10T23:37:24.014154Z", + "start_time": "2022-11-10T23:37:18.842753Z" } }, "outputs": [ @@ -4098,7 +5304,7 @@ "(5936, 4)" ] }, - "execution_count": 104, + "execution_count": 59, "metadata": {}, "output_type": "execute_result" }, @@ -4218,7 +5424,7 @@ "9 bpoc PART_OF bpoc 542301" ] }, - "execution_count": 104, + "execution_count": 59, "metadata": {}, "output_type": "execute_result" } @@ -4249,12 +5455,12 @@ }, { "cell_type": "code", - "execution_count": 105, + "execution_count": 60, "id": "d874b8f2", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:22.967022Z", - "start_time": "2022-08-17T05:16:22.957507Z" + "end_time": "2022-11-10T23:37:24.029348Z", + "start_time": "2022-11-10T23:37:24.015876Z" } }, "outputs": [ @@ -4385,7 +5591,7 @@ "[3032 rows x 4 columns]" ] }, - "execution_count": 105, + "execution_count": 60, "metadata": {}, "output_type": "execute_result" } @@ -4396,12 +5602,12 @@ }, { "cell_type": "code", - "execution_count": 106, + "execution_count": 61, "id": "86920c33", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:26.730363Z", - "start_time": "2022-08-17T05:16:26.721720Z" + "end_time": "2022-11-10T23:37:24.041838Z", + "start_time": "2022-11-10T23:37:24.031068Z" } }, "outputs": [ @@ -4489,7 +5695,7 @@ "2383 aapp PRODUCES carb 289" ] }, - "execution_count": 106, + "execution_count": 61, "metadata": {}, "output_type": "execute_result" } @@ -4506,22 +5712,22 @@ }, { "cell_type": "code", - "execution_count": 107, + "execution_count": 62, "id": "2c859df9", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:29.550504Z", - "start_time": "2022-08-17T05:16:29.541378Z" + "end_time": "2022-11-10T23:37:24.053035Z", + "start_time": "2022-11-10T23:37:24.043217Z" } }, "outputs": [ { "data": { "text/plain": [ - "(3032, 4)" + "(3032, 3)" ] }, - "execution_count": 107, + "execution_count": 62, "metadata": {}, "output_type": "execute_result" }, @@ -4549,7 +5755,6 @@ " SUBJECT_SEMTYPE\n", " PREDICATE\n", " OBJECT_SEMTYPE\n", - " COUNT\n", " \n", " \n", " \n", @@ -4558,53 +5763,50 @@ " bpoc\n", " LOCATION_OF\n", " neop\n", - " 1023005\n", " \n", " \n", " 1\n", " bpoc\n", " LOCATION_OF\n", " aapp\n", - " 953010\n", " \n", " \n", " 2\n", " topp\n", " TREATS\n", " dsyn\n", - " 849825\n", " \n", " \n", "\n", "" ], "text/plain": [ - " SUBJECT_SEMTYPE PREDICATE OBJECT_SEMTYPE COUNT\n", - "0 bpoc LOCATION_OF neop 1023005\n", - "1 bpoc LOCATION_OF aapp 953010\n", - "2 topp TREATS dsyn 849825" + " SUBJECT_SEMTYPE PREDICATE OBJECT_SEMTYPE\n", + "0 bpoc LOCATION_OF neop\n", + "1 bpoc LOCATION_OF aapp\n", + "2 topp TREATS dsyn" ] }, - "execution_count": 107, + "execution_count": 62, "metadata": {}, "output_type": "execute_result" } ], "source": [ "filtered_combos = combos[(combos['COUNT'] > 100)].copy()\n", - "# filtered_combos.drop(columns='COUNT', inplace=True)\n", + "filtered_combos.drop(columns='COUNT', inplace=True)\n", "filtered_combos.shape\n", "filtered_combos[0:3]" ] }, { "cell_type": "code", - "execution_count": 108, + "execution_count": 63, "id": "b53030eb", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:33.382768Z", - "start_time": "2022-08-17T05:16:33.375665Z" + "end_time": "2022-11-10T23:37:24.061775Z", + "start_time": "2022-11-10T23:37:24.055642Z" } }, "outputs": [], @@ -4616,65 +5818,232 @@ "\n", "filtered_combos.drop(columns = 'Abbrev', inplace=True)\n", "\n", - "filtered_combos.columns = ['OriginalSubject', 'OriginalPredicate', 'OriginalObject', 'COUNT',\n", + "filtered_combos.columns = ['OriginalSubject', 'OriginalPredicate', 'OriginalObject',\n", " 'BiolinkSubject']" ] }, { "cell_type": "code", - "execution_count": 109, - "id": "739e9d15", + "execution_count": 64, + "id": "9e435399", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:34.347665Z", - "start_time": "2022-08-17T05:16:34.340693Z" + "end_time": "2022-11-10T23:37:24.074112Z", + "start_time": "2022-11-10T23:37:24.063217Z" } }, "outputs": [], "source": [ - "## now have to map all predicate to biolink\n", + "## now have to map all object to biolink\n", "\n", - "filtered_combos = filtered_combos.merge(\n", - " SEMMED_predicates[['NameInDataFormat', 'BiolinkMapping', 'BiolinkInverse']],\n", - " how='left', left_on='OriginalPredicate', right_on='NameInDataFormat')\n", + "filtered_combos = filtered_combos.merge(SEMMED_entity_types[['Abbrev', 'BiolinkMapping']],\n", + " how='left', left_on='OriginalObject', right_on='Abbrev')\n", "\n", - "filtered_combos.drop(columns = 'NameInDataFormat', inplace=True)\n", + "filtered_combos.drop(columns = 'Abbrev', inplace=True)\n", "\n", - "filtered_combos.columns = ['OriginalSubject', 'OriginalPredicate', 'OriginalObject', 'COUNT',\n", - " 'BiolinkSubject', 'BiolinkPredicate', 'BiolinkInversePred']" + "filtered_combos.columns = ['OriginalSubject', 'OriginalPredicate', 'OriginalObject',\n", + " 'BiolinkSubject', 'BiolinkObject']" ] }, { "cell_type": "code", - "execution_count": 110, - "id": "9e435399", + "execution_count": 65, + "id": "a0fe51f5", + "metadata": { + "ExecuteTime": { + "end_time": "2022-11-10T23:37:24.085920Z", + "start_time": "2022-11-10T23:37:24.075624Z" + } + }, + "outputs": [ + { + "data": { + "text/html": [ + "
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" + ], + "text/plain": [ + " OriginalSubject OriginalPredicate OriginalObject \\\n", + "0 bpoc LOCATION_OF neop \n", + "1 bpoc LOCATION_OF aapp \n", + "2 topp TREATS dsyn \n", + "3 cell LOCATION_OF aapp \n", + "4 bpoc LOCATION_OF patf \n", + "... ... ... ... \n", + "3027 lipd TREATS neop \n", + "3028 strd AUGMENTS neop \n", + "3029 clnd TREATS anab \n", + "3030 imft PREDISPOSES inpo \n", + "3031 antb INHIBITS imft \n", + "\n", + " BiolinkSubject BiolinkObject \n", + "0 GrossAnatomicalStructure Disease \n", + "1 GrossAnatomicalStructure Polypeptide \n", + "2 Procedure Disease \n", + "3 Cell Polypeptide \n", + "4 GrossAnatomicalStructure PathologicalProcess \n", + "... ... ... \n", + "3027 SmallMolecule Disease \n", + "3028 SmallMolecule Disease \n", + "3029 Drug Disease \n", + "3030 ChemicalEntity PathologicalProcess \n", + "3031 SmallMolecule ChemicalEntity \n", + "\n", + "[3032 rows x 5 columns]" + ] + }, + "execution_count": 65, + "metadata": {}, + "output_type": "execute_result" + } + ], + "source": [ + "filtered_combos" + ] + }, + { + "cell_type": "code", + "execution_count": 66, + "id": "3f42bd07", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:35.036793Z", - "start_time": "2022-08-17T05:16:35.026767Z" + "end_time": "2022-11-10T23:37:24.093457Z", + "start_time": "2022-11-10T23:37:24.087876Z" } }, "outputs": [], "source": [ - "## now have to map all object to biolink\n", - "\n", - "filtered_combos = filtered_combos.merge(SEMMED_entity_types[['Abbrev', 'BiolinkMapping']],\n", - " how='left', left_on='OriginalObject', right_on='Abbrev')\n", - "\n", - "filtered_combos.drop(columns = 'Abbrev', inplace=True)\n", + "filtered_combos = filtered_combos.merge(\n", + " SEMMED_predicates,\n", + " how='left', left_on='OriginalPredicate', right_on='Semmed_in_Data')\n", "\n", - "filtered_combos.columns = ['OriginalSubject', 'OriginalPredicate', 'OriginalObject', 'COUNT',\n", - " 'BiolinkSubject', 'BiolinkPredicate', 'BiolinkInversePred', 'BiolinkObject']" + "filtered_combos.drop(columns = 'Semmed_in_Data', inplace=True)" ] }, { "cell_type": "code", - "execution_count": 111, - "id": "adddd021", + "execution_count": 67, + "id": "6c651d23", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:37.161168Z", - "start_time": "2022-08-17T05:16:37.152938Z" + "end_time": "2022-11-10T23:37:24.106148Z", + "start_time": "2022-11-10T23:37:24.095106Z" } }, "outputs": [ @@ -4702,11 +6071,16 @@ " OriginalSubject\n", " OriginalPredicate\n", " OriginalObject\n", - " COUNT\n", " BiolinkSubject\n", - " BiolinkPredicate\n", - " BiolinkInversePred\n", " BiolinkObject\n", + " BMPred\n", + " BMQualPred\n", + " BMObjAsp\n", + " BMObjDirect\n", + " BMPred_Inv\n", + " BMQualPred_Inv\n", + " BMInv_SubjAsp\n", + " BMInv_SubjDirect\n", " \n", " \n", " \n", @@ -4715,51 +6089,71 @@ " bpoc\n", " LOCATION_OF\n", " neop\n", - " 1023005\n", " GrossAnatomicalStructure\n", + " Disease\n", " location_of\n", + " None\n", + " None\n", + " None\n", " located_in\n", - " Disease\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 1\n", " bpoc\n", " LOCATION_OF\n", " aapp\n", - " 953010\n", " GrossAnatomicalStructure\n", + " Polypeptide\n", " location_of\n", + " None\n", + " None\n", + " None\n", " located_in\n", - " Polypeptide\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 2\n", " topp\n", " TREATS\n", " dsyn\n", - " 849825\n", " Procedure\n", + " Disease\n", " treats\n", + " None\n", + " None\n", + " None\n", " treated_by\n", - " Disease\n", + " None\n", + " None\n", + " None\n", " \n", " \n", "\n", "" ], "text/plain": [ - " OriginalSubject OriginalPredicate OriginalObject COUNT \\\n", - "0 bpoc LOCATION_OF neop 1023005 \n", - "1 bpoc LOCATION_OF aapp 953010 \n", - "2 topp TREATS dsyn 849825 \n", + " OriginalSubject OriginalPredicate OriginalObject BiolinkSubject \\\n", + "0 bpoc LOCATION_OF neop GrossAnatomicalStructure \n", + "1 bpoc LOCATION_OF aapp GrossAnatomicalStructure \n", + "2 topp TREATS dsyn Procedure \n", "\n", - " BiolinkSubject BiolinkPredicate BiolinkInversePred BiolinkObject \n", - "0 GrossAnatomicalStructure location_of located_in Disease \n", - "1 GrossAnatomicalStructure location_of located_in Polypeptide \n", - "2 Procedure treats treated_by Disease " + " BiolinkObject BMPred BMQualPred BMObjAsp BMObjDirect BMPred_Inv \\\n", + "0 Disease location_of None None None located_in \n", + "1 Polypeptide location_of None None None located_in \n", + "2 Disease treats None None None treated_by \n", + "\n", + " BMQualPred_Inv BMInv_SubjAsp BMInv_SubjDirect \n", + "0 None None None \n", + "1 None None None \n", + "2 None None None " ] }, - "execution_count": 111, + "execution_count": 67, "metadata": {}, "output_type": "execute_result" } @@ -4770,12 +6164,12 @@ }, { "cell_type": "code", - "execution_count": 112, + "execution_count": 68, "id": "cc7864f5", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:38.778740Z", - "start_time": "2022-08-17T05:16:38.759340Z" + "end_time": "2022-11-11T01:13:13.149481Z", + "start_time": "2022-11-11T01:13:13.126272Z" } }, "outputs": [ @@ -4803,11 +6197,16 @@ " OriginalSubject\n", " OriginalPredicate\n", " OriginalObject\n", - " COUNT\n", " BiolinkSubject\n", - " BiolinkPredicate\n", - " BiolinkInversePred\n", " BiolinkObject\n", + " BMPred\n", + " BMQualPred\n", + " BMObjAsp\n", + " BMObjDirect\n", + " BMPred_Inv\n", + " BMQualPred_Inv\n", + " BMInv_SubjAsp\n", + " BMInv_SubjDirect\n", " \n", " \n", " \n", @@ -4817,11 +6216,11 @@ ], "text/plain": [ "Empty DataFrame\n", - "Columns: [OriginalSubject, OriginalPredicate, OriginalObject, COUNT, BiolinkSubject, BiolinkPredicate, BiolinkInversePred, BiolinkObject]\n", + "Columns: [OriginalSubject, OriginalPredicate, OriginalObject, BiolinkSubject, BiolinkObject, BMPred, BMQualPred, BMObjAsp, BMObjDirect, BMPred_Inv, BMQualPred_Inv, BMInv_SubjAsp, BMInv_SubjDirect]\n", "Index: []" ] }, - "execution_count": 112, + "execution_count": 68, "metadata": {}, "output_type": "execute_result" }, @@ -4849,11 +6248,16 @@ " OriginalSubject\n", " OriginalPredicate\n", " OriginalObject\n", - " COUNT\n", " BiolinkSubject\n", - " BiolinkPredicate\n", - " BiolinkInversePred\n", " BiolinkObject\n", + " BMPred\n", + " BMQualPred\n", + " BMObjAsp\n", + " BMObjDirect\n", + " BMPred_Inv\n", + " BMQualPred_Inv\n", + " BMInv_SubjAsp\n", + " BMInv_SubjDirect\n", " \n", " \n", " \n", @@ -4863,11 +6267,11 @@ ], "text/plain": [ "Empty DataFrame\n", - "Columns: [OriginalSubject, OriginalPredicate, OriginalObject, COUNT, BiolinkSubject, BiolinkPredicate, BiolinkInversePred, BiolinkObject]\n", + "Columns: [OriginalSubject, OriginalPredicate, OriginalObject, BiolinkSubject, BiolinkObject, BMPred, BMQualPred, BMObjAsp, BMObjDirect, BMPred_Inv, BMQualPred_Inv, BMInv_SubjAsp, BMInv_SubjDirect]\n", "Index: []" ] }, - "execution_count": 112, + "execution_count": 68, "metadata": {}, "output_type": "execute_result" }, @@ -4895,11 +6299,16 @@ " OriginalSubject\n", " OriginalPredicate\n", " OriginalObject\n", - " COUNT\n", " BiolinkSubject\n", - " BiolinkPredicate\n", - " BiolinkInversePred\n", " BiolinkObject\n", + " BMPred\n", + " BMQualPred\n", + " BMObjAsp\n", + " BMObjDirect\n", + " BMPred_Inv\n", + " BMQualPred_Inv\n", + " BMInv_SubjAsp\n", + " BMInv_SubjDirect\n", " \n", " \n", " \n", @@ -4909,11 +6318,11 @@ ], "text/plain": [ "Empty DataFrame\n", - "Columns: [OriginalSubject, OriginalPredicate, OriginalObject, COUNT, BiolinkSubject, BiolinkPredicate, BiolinkInversePred, BiolinkObject]\n", + "Columns: [OriginalSubject, OriginalPredicate, OriginalObject, BiolinkSubject, BiolinkObject, BMPred, BMQualPred, BMObjAsp, BMObjDirect, BMPred_Inv, BMQualPred_Inv, BMInv_SubjAsp, BMInv_SubjDirect]\n", "Index: []" ] }, - "execution_count": 112, + "execution_count": 68, "metadata": {}, "output_type": "execute_result" }, @@ -4941,11 +6350,16 @@ " OriginalSubject\n", " OriginalPredicate\n", " OriginalObject\n", - " COUNT\n", " BiolinkSubject\n", - " BiolinkPredicate\n", - " BiolinkInversePred\n", " BiolinkObject\n", + " BMPred\n", + " BMQualPred\n", + " BMObjAsp\n", + " BMObjDirect\n", + " BMPred_Inv\n", + " BMQualPred_Inv\n", + " BMInv_SubjAsp\n", + " BMInv_SubjDirect\n", " \n", " \n", " \n", @@ -4955,11 +6369,11 @@ ], "text/plain": [ "Empty DataFrame\n", - "Columns: [OriginalSubject, OriginalPredicate, OriginalObject, COUNT, BiolinkSubject, BiolinkPredicate, BiolinkInversePred, BiolinkObject]\n", + "Columns: [OriginalSubject, OriginalPredicate, OriginalObject, BiolinkSubject, BiolinkObject, BMPred, BMQualPred, BMObjAsp, BMObjDirect, BMPred_Inv, BMQualPred_Inv, BMInv_SubjAsp, BMInv_SubjDirect]\n", "Index: []" ] }, - "execution_count": 112, + "execution_count": 68, "metadata": {}, "output_type": "execute_result" } @@ -4967,19 +6381,34 @@ "source": [ "## check to make sure everything is mapped to Biolink successfully\n", "filtered_combos[filtered_combos['BiolinkSubject'].isna()]\n", - "filtered_combos[filtered_combos['BiolinkPredicate'].isna()]\n", - "filtered_combos[filtered_combos['BiolinkInversePred'].isna()]\n", - "filtered_combos[filtered_combos['BiolinkObject'].isna()]" + "filtered_combos[filtered_combos['BiolinkObject'].isna()]\n", + "\n", + "filtered_combos[filtered_combos['BMPred'].isna()]\n", + "filtered_combos[filtered_combos['BMPred_Inv'].isna()]" ] }, { "cell_type": "markdown", "id": "62b0c6b7", - "metadata": {}, + "metadata": { + "heading_collapsed": true + }, "source": [ "### Optional Analysis: looking at row counts, organized by biolink combos" ] }, + { + "cell_type": "markdown", + "id": "4fad7760", + "metadata": { + "hidden": true + }, + "source": [ + "PAUSE\n", + "\n", + "Deprecated code: will need to include COUNT column after creating the filtered_combos object..." + ] + }, { "cell_type": "code", "execution_count": 113, @@ -4988,7 +6417,8 @@ "ExecuteTime": { "end_time": "2022-08-17T05:16:46.369759Z", "start_time": "2022-08-17T05:16:46.362883Z" - } + }, + "hidden": true }, "outputs": [], "source": [ @@ -5013,7 +6443,8 @@ "ExecuteTime": { "end_time": "2022-08-17T05:16:47.194635Z", "start_time": "2022-08-17T05:16:47.181968Z" - } + }, + "hidden": true }, "outputs": [ { @@ -5533,17 +6964,18 @@ "**PAUSE**\n", "\n", "* If needed, change the code within the functions below to change the x-bte annotations that are made...\n", + " * review the qualifier-generating code! Currently it's very simple because all operations with qualifiers have the same set: qualified_predicate, an aspect_qualifier, and a direction_qualifier...\n", "* the yaml created below refers to umls-subj and umls-obj...those are specified [here close to the bottom](https://github.com/NCATS-Tangerine/translator-api-registry/blob/master/semmeddb/version_without_operations.yaml)" ] }, { "cell_type": "code", - "execution_count": 115, + "execution_count": 69, "id": "1fcf921d", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:57.389262Z", - "start_time": "2022-08-17T05:16:57.385096Z" + "end_time": "2022-11-11T01:13:16.617428Z", + "start_time": "2022-11-11T01:13:16.614541Z" } }, "outputs": [], @@ -5554,18 +6986,20 @@ }, { "cell_type": "code", - "execution_count": 116, - "id": "4849cde4", + "execution_count": 70, + "id": "222c6bd1", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:18:06.014049Z", - "start_time": "2022-08-17T05:18:06.009067Z" + "end_time": "2022-11-11T01:13:17.144483Z", + "start_time": "2022-11-11T01:13:17.137103Z" } }, "outputs": [], "source": [ "def generate_forward_op(original_subj, original_pred, original_obj,\n", - " biolink_subj, biolink_pred, biolink_obj):\n", + " biolink_subj, \n", + " biolink_pred, biolink_qualified_pred, biolink_obj_asp, biolink_obj_direct,\n", + " biolink_obj):\n", " ## set size parameter for biothings POST query. This will change depending on what is set for the API\n", " POST_size = 1000 \n", " \n", @@ -5581,57 +7015,103 @@ " '\"subject.novelty\", \"object.novelty\"]' \\\n", " '}')\n", " \n", - " ## create operation...\n", - " temp = {\n", - " ## original direction: subject -> object\n", - " normal_op_name: [\n", - " {\n", - " 'supportBatch': True,\n", - " 'useTemplating': True,\n", - " 'inputs': [\n", - " {\n", - " 'id': 'UMLS',\n", - " 'semantic': biolink_subj ## input is subject!\n", + " if biolink_qualified_pred:\n", + " ## if there is a qualified_predicate\n", + " ## there's a set of qualifiers that also has obj aspect and obj direction\n", + " temp = {\n", + " ## original direction: subject -> object\n", + " normal_op_name: [\n", + " {\n", + " 'supportBatch': True,\n", + " 'useTemplating': True,\n", + " 'inputs': [\n", + " {\n", + " 'id': 'UMLS',\n", + " 'semantic': biolink_subj ## input is subject!\n", + " }\n", + " ],\n", + " 'requestBodyType': 'object',\n", + " 'requestBody': {'body': normal_op_body},\n", + " 'parameters': {\n", + " 'fields': 'object.umls,pmid,subject.umls,subject.name,predicate,object.name',\n", + " 'size': POST_size\n", + " },\n", + " 'outputs': [\n", + " {\n", + " 'id': 'UMLS',\n", + " 'semantic': biolink_obj ## output is object\n", + " }\n", + " ],\n", + " 'predicate': biolink_pred,\n", + " 'qualifiers': {\n", + " 'qualified_predicate': biolink_qualified_pred,\n", + " 'object_aspect_qualifier': biolink_obj_asp,\n", + " 'object_direction_qualifier': biolink_obj_direct\n", + "\n", + " },\n", + " 'source': 'infores:semmeddb',\n", + " 'response_mapping': {\n", + " \"$ref\": '#/components/x-bte-response-mapping/umls-obj' ## matches output as object\n", " }\n", - " ],\n", - " 'requestBodyType': 'object',\n", - " 'requestBody': {'body': normal_op_body},\n", - " 'parameters': {\n", - " 'fields': 'object.umls,pmid,subject.umls,subject.name,predicate,object.name',\n", - " 'size': POST_size\n", - " },\n", - " 'outputs': [\n", - " {\n", - " 'id': 'UMLS',\n", - " 'semantic': biolink_obj ## output is object\n", + " }\n", + " ]\n", + " }\n", + " else:\n", + " ## create operation without qualifiers..\n", + " temp = {\n", + " ## original direction: subject -> object\n", + " normal_op_name: [\n", + " {\n", + " 'supportBatch': True,\n", + " 'useTemplating': True,\n", + " 'inputs': [\n", + " {\n", + " 'id': 'UMLS',\n", + " 'semantic': biolink_subj ## input is subject!\n", + " }\n", + " ],\n", + " 'requestBodyType': 'object',\n", + " 'requestBody': {'body': normal_op_body},\n", + " 'parameters': {\n", + " 'fields': 'object.umls,pmid,subject.umls,subject.name,predicate,object.name',\n", + " 'size': POST_size\n", + " },\n", + " 'outputs': [\n", + " {\n", + " 'id': 'UMLS',\n", + " 'semantic': biolink_obj ## output is object\n", + " }\n", + " ],\n", + " 'predicate': biolink_pred,\n", + " 'source': 'infores:semmeddb',\n", + " 'response_mapping': {\n", + " \"$ref\": '#/components/x-bte-response-mapping/umls-obj' ## matches output as object\n", " }\n", - " ],\n", - " 'predicate': biolink_pred,\n", - " 'source': 'infores:semmeddb',\n", - " 'response_mapping': {\n", - " \"$ref\": '#/components/x-bte-response-mapping/umls-obj' ## matches output as object\n", " }\n", - " }\n", - " ]\n", - " }\n", + " ]\n", + " }\n", + " \n", " return temp" ] }, { "cell_type": "code", - "execution_count": 117, - "id": "03e65b67", + "execution_count": 71, + "id": "912aa75d", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:18:11.718327Z", - "start_time": "2022-08-17T05:18:11.713378Z" + "end_time": "2022-11-11T01:13:17.754217Z", + "start_time": "2022-11-11T01:13:17.746766Z" } }, "outputs": [], "source": [ "def generate_reverse_op(original_subj, original_pred, original_obj,\n", - " biolink_subj, biolink_inverse_pred, ## NOTICE THE INVERSE PRED USED HERE\n", - " biolink_obj):\n", + " biolink_subj, \n", + " ## NOTICE THE INVERSES USED HERE\n", + " biolink_inverse_pred, biolink_inverse_qualified_pred, \n", + " biolink_inverse_subj_asp, biolink_inverse_subj_direct,\n", + " biolink_obj):\n", " ## set size parameter for biothings POST query. This will change depending on what is set for the API\n", " POST_size = 1000 \n", " \n", @@ -5647,50 +7127,95 @@ " '\"subject.novelty\", \"object.novelty\"]' \\\n", " '}')\n", " \n", - " ## create the operation...\n", - " temp = {\n", - " ## reverse direction: object -> subject\n", - " rev_op_name: [\n", - " {\n", - " 'supportBatch': True,\n", - " 'useTemplating': True,\n", - " 'inputs': [\n", - " {\n", - " 'id': 'UMLS',\n", - " 'semantic': biolink_obj ## input is object!\n", + " \n", + " \n", + " if biolink_inverse_qualified_pred:\n", + " ## if there is a qualified_predicate\n", + " ## there's a set of qualifiers that also has subj aspect and subj direction\n", + " temp = {\n", + " ## reverse direction: object -> subject\n", + " rev_op_name: [\n", + " {\n", + " 'supportBatch': True,\n", + " 'useTemplating': True,\n", + " 'inputs': [\n", + " {\n", + " 'id': 'UMLS',\n", + " 'semantic': biolink_obj ## input is object!\n", + " }\n", + " ],\n", + " 'requestBodyType': 'object',\n", + " 'requestBody': {'body': rev_op_body},\n", + " 'parameters': {\n", + " 'fields': 'subject.umls,pmid,subject.name,predicate,object.umls,object.name',\n", + " 'size': POST_size\n", + " },\n", + " 'outputs': [\n", + " {\n", + " 'id': 'UMLS',\n", + " 'semantic': biolink_subj ## output is subject\n", + " }\n", + " ],\n", + " 'predicate': biolink_inverse_pred, ## use inverse pred!\n", + " 'qualifiers': {\n", + " 'qualified_predicate': biolink_inverse_qualified_pred, ## use inverse pred!\n", + " ## use subject qualifiers\n", + " 'subject_aspect_qualifier': biolink_inverse_subj_asp, \n", + " 'subject_direction_qualifier': biolink_inverse_subj_direct \n", + " }, \n", + " 'source': 'infores:semmeddb',\n", + " 'response_mapping': {\n", + " \"$ref\": '#/components/x-bte-response-mapping/umls-subj' ## matches output as subj\n", " }\n", - " ],\n", - " 'requestBodyType': 'object',\n", - " 'requestBody': {'body': rev_op_body},\n", - " 'parameters': {\n", - " 'fields': 'subject.umls,pmid,subject.name,predicate,object.umls,object.name',\n", - " 'size': POST_size\n", - " },\n", - " 'outputs': [\n", - " {\n", - " 'id': 'UMLS',\n", - " 'semantic': biolink_subj ## output is subject\n", + " }\n", + " ]\n", + " }\n", + " else:\n", + " ## create operation without qualifiers..\n", + " temp = {\n", + " ## reverse direction: object -> subject\n", + " rev_op_name: [\n", + " {\n", + " 'supportBatch': True,\n", + " 'useTemplating': True,\n", + " 'inputs': [\n", + " {\n", + " 'id': 'UMLS',\n", + " 'semantic': biolink_obj ## input is object!\n", + " }\n", + " ],\n", + " 'requestBodyType': 'object',\n", + " 'requestBody': {'body': rev_op_body},\n", + " 'parameters': {\n", + " 'fields': 'subject.umls,pmid,subject.name,predicate,object.umls,object.name',\n", + " 'size': POST_size\n", + " },\n", + " 'outputs': [\n", + " {\n", + " 'id': 'UMLS',\n", + " 'semantic': biolink_subj ## output is subject\n", + " }\n", + " ],\n", + " 'predicate': biolink_inverse_pred, ## use inverse pred!\n", + " 'source': 'infores:semmeddb',\n", + " 'response_mapping': {\n", + " \"$ref\": '#/components/x-bte-response-mapping/umls-subj' ## matches output as subj\n", " }\n", - " ],\n", - " 'predicate': biolink_inverse_pred, ## use inverse pred!\n", - " 'source': 'infores:semmeddb',\n", - " 'response_mapping': {\n", - " \"$ref\": '#/components/x-bte-response-mapping/umls-subj' ## matches output as subj\n", " }\n", - " }\n", - " ]\n", - " }\n", + " ]\n", + " }\n", + " \n", " return temp" ] }, { "cell_type": "code", - "execution_count": 118, + "execution_count": 72, "id": "db9f9f81", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:18:15.053856Z", - "start_time": "2022-08-17T05:18:15.048320Z" + "end_time": "2022-11-11T01:13:18.376892Z", + "start_time": "2022-11-11T01:13:18.370851Z" } }, "outputs": [], @@ -5711,10 +7236,13 @@ " original_pred = row.OriginalPredicate,\n", " original_obj = row.OriginalObject,\n", " biolink_subj = row.BiolinkSubject,\n", - " biolink_pred = row.BiolinkPredicate,\n", + " biolink_pred = row.BMPred,\n", + " biolink_qualified_pred = row.BMQualPred,\n", + " biolink_obj_asp = row.BMObjAsp,\n", + " biolink_obj_direct = row.BMObjDirect,\n", " biolink_obj = row.BiolinkObject\n", - " ))\n", - " \n", + " )) \n", + " \n", " ## reverse: make operation if it's not going to be a dupe\n", " ## dupes happen when query ends up being the same (predicate,subject used here)\n", " reverse_op_record = f\"rev-{row.BiolinkObject}-{row.OriginalPredicate}-{row.OriginalSubject}\"\n", @@ -5724,9 +7252,12 @@ " original_pred = row.OriginalPredicate,\n", " original_obj = row.OriginalObject,\n", " biolink_subj = row.BiolinkSubject,\n", - " biolink_inverse_pred = row.BiolinkInversePred,\n", + " biolink_inverse_pred = row.BMPred_Inv,\n", + " biolink_inverse_qualified_pred = row.BMQualPred_Inv,\n", + " biolink_inverse_subj_asp = row.BMInv_SubjAsp,\n", + " biolink_inverse_subj_direct = row.BMInv_SubjDirect,\n", " biolink_obj = row.BiolinkObject\n", - " ))\n", + " )) \n", " \n", " final = {\"x-bte-kgs-operations\": saved}\n", " return final" @@ -5742,12 +7273,12 @@ }, { "cell_type": "code", - "execution_count": 119, + "execution_count": 73, "id": "3856781d", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:18:19.290936Z", - "start_time": "2022-08-17T05:18:19.270894Z" + "end_time": "2022-11-11T01:13:22.397156Z", + "start_time": "2022-11-11T01:13:22.374512Z" } }, "outputs": [], @@ -5757,12 +7288,12 @@ }, { "cell_type": "code", - "execution_count": 120, + "execution_count": 74, "id": "fdcd4202", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:18:20.280290Z", - "start_time": "2022-08-17T05:18:20.276859Z" + "end_time": "2022-11-11T01:13:23.135725Z", + "start_time": "2022-11-11T01:13:23.131371Z" } }, "outputs": [ @@ -5772,7 +7303,7 @@ "2497" ] }, - "execution_count": 120, + "execution_count": 74, "metadata": {}, "output_type": "execute_result" } @@ -5781,6 +7312,49 @@ "len(kgs_operations['x-bte-kgs-operations'])" ] }, + { + "cell_type": "code", + "execution_count": 75, + "id": "5495d772", + "metadata": { + "ExecuteTime": { + "end_time": "2022-11-11T01:13:24.603378Z", + "start_time": "2022-11-11T01:13:24.598560Z" + } + }, + "outputs": [ + { + "name": "stdout", + "output_type": "stream", + "text": [ + "[{'supportBatch': True,\n", + " 'useTemplating': True,\n", + " 'inputs': [{'id': 'UMLS', 'semantic': 'Polypeptide'}],\n", + " 'requestBodyType': 'object',\n", + " 'requestBody': {'body': '{\"q\": [ {{ queryInputs | wrap( \\'[\"\\', '\n", + " '\\'\",\"INHIBITS\",\"aapp\",1,1]\\' )}}], \"scopes\": '\n", + " '[\"object.umls\", \"predicate\", '\n", + " '\"subject.semantic_type_abbreviation\", '\n", + " '\"subject.novelty\", \"object.novelty\"]}'},\n", + " 'parameters': {'fields': 'subject.umls,pmid,subject.name,predicate,object.umls,object.name',\n", + " 'size': 1000},\n", + " 'outputs': [{'id': 'UMLS', 'semantic': 'Polypeptide'}],\n", + " 'predicate': 'affected_by',\n", + " 'qualifiers': {'qualified_predicate': 'caused_by',\n", + " 'subject_aspect_qualifier': 'activity_or_abundance',\n", + " 'subject_direction_qualifier': 'decreased'},\n", + " 'source': 'infores:semmeddb',\n", + " 'response_mapping': {'$ref': '#/components/x-bte-response-mapping/umls-subj'}}]\n" + ] + } + ], + "source": [ + "for i in kgs_operations['x-bte-kgs-operations'].keys():\n", + " if ('INHIBITS' in i) and ('rev' in i):\n", + " pprint.pprint(kgs_operations['x-bte-kgs-operations'][i], sort_dicts = False)\n", + " break" + ] + }, { "cell_type": "markdown", "id": "fd057af2", @@ -5796,12 +7370,12 @@ }, { "cell_type": "code", - "execution_count": 121, + "execution_count": 76, "id": "239dce9d", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:18:27.978306Z", - "start_time": "2022-08-17T05:18:24.062338Z" + "end_time": "2022-11-11T01:13:31.985880Z", + "start_time": "2022-11-11T01:13:27.914718Z" } }, "outputs": [], @@ -5824,12 +7398,12 @@ }, { "cell_type": "code", - "execution_count": 122, + "execution_count": 77, "id": "27403608", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:18:29.971726Z", - "start_time": "2022-08-17T05:18:29.968750Z" + "end_time": "2022-11-11T01:14:06.837215Z", + "start_time": "2022-11-11T01:14:06.834248Z" } }, "outputs": [], @@ -5844,12 +7418,12 @@ }, { "cell_type": "code", - "execution_count": 123, + "execution_count": 78, "id": "4bec97ed", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:18:33.875873Z", - "start_time": "2022-08-17T05:18:33.872623Z" + "end_time": "2022-11-11T01:14:07.624866Z", + "start_time": "2022-11-11T01:14:07.621897Z" } }, "outputs": [], @@ -5859,12 +7433,12 @@ }, { "cell_type": "code", - "execution_count": 124, + "execution_count": 79, "id": "e64c34db", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:18:34.926260Z", - "start_time": "2022-08-17T05:18:34.590589Z" + "end_time": "2022-11-11T01:14:08.779358Z", + "start_time": "2022-11-11T01:14:08.426386Z" } }, "outputs": [], @@ -6095,10 +7669,10 @@ "title_sidebar": "Contents", "toc_cell": false, "toc_position": { - "height": "calc(100% - 180px)", - "left": "10px", - "top": "150px", - "width": "342px" + "height": "796.5px", + "left": "39px", + "top": "109.633px", + "width": "362.5px" }, "toc_section_display": true, "toc_window_display": true From f501fd03963db83434bc9c4228796bf84622722b Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Tue, 15 Nov 2022 14:28:38 -0800 Subject: [PATCH 32/46] service provider: add new SRI test-data file for qualifiers --- .../qualifier-sri-test-service.json | 75 +++++++++++++++++++ 1 file changed, 75 insertions(+) create mode 100644 biothings_explorer/qualifier-sri-test-service.json diff --git a/biothings_explorer/qualifier-sri-test-service.json b/biothings_explorer/qualifier-sri-test-service.json new file mode 100644 index 00000000..25b0694e --- /dev/null +++ b/biothings_explorer/qualifier-sri-test-service.json @@ -0,0 +1,75 @@ +{ + "infores": "service-provider-trapi", + "edges": [ + { + "underlying_api_infores": "biothings-dgidb", + "underlying_source_infores": "dgidb", + "subject_category": "biolink:SmallMolecule", + "subject": "CHEMBL.COMPOUND:CHEMBL266510", + "subject_name": "FLINDOKALNER", + "predicate": "biolink:affects", + "object_category": "biolink:Gene", + "object": "NCBIGene:9132", + "object_name": "KCNQ4", + "qualifiers": [ + { + "qualifier_type_id": "biolink:qualified_predicate", + "qualifier_value": "biolink:causes" + }, + { + "qualifier_type_id": "biolink:object_aspect_qualifier", + "qualifier_value": "activity" + }, + { + "qualifier_type_id": "biolink:object_direction_qualifier", + "qualifier_value": "increased" + }, + { + "qualifier_type_id": "biolink:causal_mechanism_qualifier", + "qualifier_value": "activation" + } + ] + }, + { + "underlying_api_infores": "biothings-go-bp", + "underlying_source_infores": "go", + "subject_category": "biolink:BiologicalProcess", + "subject": "GO:0090272", + "subject_name": "negative regulation of fibroblast growth factor production", + "predicate": "biolink:regulates", + "object_category": "biolink:BiologicalProcess", + "object": "GO:0090269", + "object_name": "fibroblast growth factor production", + "qualifiers": [ + { + "qualifier_type_id": "biolink:object_direction_qualifier", + "qualifier_value": "downregulated" + } + ] + }, + { + "underlying_api_infores": "text-mining-provider-targeted", + "subject_category": "biolink:SmallMolecule", + "subject": "CHEBI:3215", + "subject_name": "bupivacaine", + "predicate": "biolink:affects", + "object_category": "biolink:Gene", + "object": "UniProtKB:Q9P2L0", + "object_name": "WDR35", + "qualifiers": [ + { + "qualifier_type_id": "biolink:qualified_predicate", + "qualifier_value": "biolink:causes" + }, + { + "qualifier_type_id": "biolink:object_aspect_qualifier", + "qualifier_value": "activity_or_abundance" + }, + { + "qualifier_type_id": "biolink:object_direction_qualifier", + "qualifier_value": "increased" + } + ] + } + ] +} From 47f3054ffd6ee565e0b4d490e3b908e58951825e Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Tue, 22 Nov 2022 13:28:29 -0800 Subject: [PATCH 33/46] biolink/monarch,dgidb: revert to using interacts_with predicate due to removing the abstract label from biolink interacts_with predicate https://github.com/biolink/biolink-model/issues/1171 --- biolink/openapi.yml | 3 +-- dgidb/openapi.yml | 8 ++------ 2 files changed, 3 insertions(+), 8 deletions(-) diff --git a/biolink/openapi.yml b/biolink/openapi.yml index ef547da3..7a4776a7 100644 --- a/biolink/openapi.yml +++ b/biolink/openapi.yml @@ -1094,10 +1094,9 @@ components: outputs: - id: HGNC semantic: Gene - ## biolink 2.4.8: used interacts_with ## looks like they are using biogrid? And it looks like there's all kinds of interactions ## with all levels of certainty https://wiki.thebiogrid.org/doku.php/experimental_systems - predicate: related_to + predicate: interacts_with source: "infores:monarchinitiative" response_mapping: "$ref": "#/components/x-bte-response-mapping/gene-hgnc" diff --git a/dgidb/openapi.yml b/dgidb/openapi.yml index 60c063c6..02cd3ddf 100644 --- a/dgidb/openapi.yml +++ b/dgidb/openapi.yml @@ -1426,9 +1426,7 @@ components: outputs: - id: NCBIGene semantic: Gene - ## DGIdb drug-gene interactions - ## for biolink 2.4.8, used interacts_with - predicate: related_to + predicate: interacts_with source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -1456,9 +1454,7 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## DGIdb drug-gene interactions - ## for biolink 2.4.8, used interacts_with - predicate: related_to + predicate: interacts_with source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" From 3d798b91241c4080c62d02dd53867f05a4aa49b5 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Tue, 15 Nov 2022 14:30:57 -0800 Subject: [PATCH 34/46] service provider: add test-data url for qualifiers, change production test-data url to default --- biothings_explorer/service-provider-trapi.yaml | 4 +++- 1 file changed, 3 insertions(+), 1 deletion(-) diff --git a/biothings_explorer/service-provider-trapi.yaml b/biothings_explorer/service-provider-trapi.yaml index 5fc2b0b9..ab9bb08e 100644 --- a/biothings_explorer/service-provider-trapi.yaml +++ b/biothings_explorer/service-provider-trapi.yaml @@ -27,7 +27,9 @@ info: ## other endpoints don't have rate limits rate_limit: 15 test_data_location: - production: + dev: + url: "https://raw.githubusercontent.com/NCATS-Tangerine/translator-api-registry/biolink3/biothings_explorer/qualifier-sri-test-service.json" + default: url: - "https://raw.githubusercontent.com/NCATS-Tangerine/translator-api-registry/master/biothings_explorer/sri-test-service-provider.json" - "https://raw.githubusercontent.com/NCATS-Tangerine/translator-api-registry/master/biothings_explorer/sri-test-multiomics.json" From 75b9553b80b4943023424aca6ce5659420d8626c Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Tue, 15 Nov 2022 14:34:41 -0800 Subject: [PATCH 35/46] service provider: fix dev test-data-url to development --- biothings_explorer/service-provider-trapi.yaml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/biothings_explorer/service-provider-trapi.yaml b/biothings_explorer/service-provider-trapi.yaml index ab9bb08e..02e455d4 100644 --- a/biothings_explorer/service-provider-trapi.yaml +++ b/biothings_explorer/service-provider-trapi.yaml @@ -27,7 +27,7 @@ info: ## other endpoints don't have rate limits rate_limit: 15 test_data_location: - dev: + development: url: "https://raw.githubusercontent.com/NCATS-Tangerine/translator-api-registry/biolink3/biothings_explorer/qualifier-sri-test-service.json" default: url: From da2e91d6fb3676820c14cba6c5ffae26020064d0 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Thu, 8 Dec 2022 14:53:52 -0800 Subject: [PATCH 36/46] semmeddb notebook: update code for using biolink 3.1.1 no difference in output --- semmeddb/AutoGen_SEMMEDDB.ipynb | 988 +++++++++++++++++--------------- 1 file changed, 526 insertions(+), 462 deletions(-) diff --git a/semmeddb/AutoGen_SEMMEDDB.ipynb b/semmeddb/AutoGen_SEMMEDDB.ipynb index e97342d0..1e417ac1 100755 --- a/semmeddb/AutoGen_SEMMEDDB.ipynb +++ b/semmeddb/AutoGen_SEMMEDDB.ipynb @@ -41,8 +41,7 @@ "metadata": {}, "source": [ "Requirements:\n", - "* get bmt from github (using pip to install). Using release 0.8.12 at the moment.\n", - " * If you encounter errors importing bmt when running the code chunk below, you may need to run this command in your terminal: `pip install linkml-runtime`\n", + "* get [Biolink-model Toolkit (bmt)](https://github.com/biolink/biolink-model-toolkit/) from github (using pip to [install](https://biolink.github.io/biolink-model-toolkit/intro/intro.html)). Using release 0.9.0 at the moment.\n", "* get ruamel_yaml from [conda-forge](https://anaconda.org/conda-forge/ruamel_yaml). However, the [version from pip](https://yaml.readthedocs.io/en/latest/install.html) should work as well with this code, but you'll have to change the import statement below to import `ruamel.yaml`. \n", "\n", "Files:\n", @@ -58,8 +57,8 @@ "id": "a5ee5aac", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:34:43.405558Z", - "start_time": "2022-11-10T23:34:41.727208Z" + "end_time": "2022-12-08T22:26:12.014583Z", + "start_time": "2022-12-08T22:26:10.555122Z" } }, "outputs": [], @@ -102,8 +101,8 @@ "id": "73408978", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:35:56.046345Z", - "start_time": "2022-11-10T23:34:43.408006Z" + "end_time": "2022-12-08T22:27:31.344555Z", + "start_time": "2022-12-08T22:26:14.649813Z" } }, "outputs": [], @@ -124,8 +123,8 @@ "id": "e8150ed6", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:35:56.057508Z", - "start_time": "2022-11-10T23:35:56.048410Z" + "end_time": "2022-12-08T22:27:38.378852Z", + "start_time": "2022-12-08T22:27:38.369470Z" } }, "outputs": [ @@ -150,8 +149,8 @@ "id": "57d2dc4a", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:35:56.070671Z", - "start_time": "2022-11-10T23:35:56.060534Z" + "end_time": "2022-12-08T22:27:39.105739Z", + "start_time": "2022-12-08T22:27:39.092974Z" } }, "outputs": [ @@ -278,8 +277,8 @@ "id": "6c362bfe", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:36:02.492976Z", - "start_time": "2022-11-10T23:35:56.072483Z" + "end_time": "2022-12-08T22:27:50.049872Z", + "start_time": "2022-12-08T22:27:43.085786Z" } }, "outputs": [], @@ -294,8 +293,8 @@ "id": "68a11e89", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:36:02.498419Z", - "start_time": "2022-11-10T23:36:02.495007Z" + "end_time": "2022-12-08T22:28:00.166351Z", + "start_time": "2022-12-08T22:28:00.162811Z" } }, "outputs": [ @@ -320,8 +319,8 @@ "id": "9abae6d5", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:36:04.021849Z", - "start_time": "2022-11-10T23:36:02.500261Z" + "end_time": "2022-12-08T22:28:02.938866Z", + "start_time": "2022-12-08T22:28:01.232942Z" } }, "outputs": [], @@ -346,8 +345,8 @@ "id": "67a2db8e", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:36:11.820336Z", - "start_time": "2022-11-10T23:36:04.023580Z" + "end_time": "2022-12-08T22:28:14.084011Z", + "start_time": "2022-12-08T22:28:05.850640Z" } }, "outputs": [ @@ -424,8 +423,8 @@ "id": "69d37a01", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:36:11.826587Z", - "start_time": "2022-11-10T23:36:11.822133Z" + "end_time": "2022-12-08T22:28:17.650088Z", + "start_time": "2022-12-08T22:28:17.644954Z" } }, "outputs": [ @@ -584,8 +583,8 @@ "id": "26561f10", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:36:16.136865Z", - "start_time": "2022-11-10T23:36:11.830313Z" + "end_time": "2022-12-08T22:28:25.133876Z", + "start_time": "2022-12-08T22:28:20.295431Z" } }, "outputs": [], @@ -603,8 +602,8 @@ "id": "1f18986e", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:36:23.990391Z", - "start_time": "2022-11-10T23:36:16.138737Z" + "end_time": "2022-12-08T22:28:40.001151Z", + "start_time": "2022-12-08T22:28:31.960526Z" } }, "outputs": [ @@ -664,8 +663,8 @@ "id": "09163f4e", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:36:23.995861Z", - "start_time": "2022-11-10T23:36:23.992340Z" + "end_time": "2022-12-08T22:28:45.652826Z", + "start_time": "2022-12-08T22:28:45.648244Z" } }, "outputs": [ @@ -772,8 +771,8 @@ "id": "dec1bcc5", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:36:24.002168Z", - "start_time": "2022-11-10T23:36:23.998116Z" + "end_time": "2022-12-08T22:28:49.653474Z", + "start_time": "2022-12-08T22:28:49.649724Z" } }, "outputs": [], @@ -799,8 +798,8 @@ "id": "0ab643b0", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:36:37.983540Z", - "start_time": "2022-11-10T23:36:24.003908Z" + "end_time": "2022-12-08T22:29:07.183339Z", + "start_time": "2022-12-08T22:28:51.786401Z" } }, "outputs": [], @@ -824,8 +823,8 @@ "id": "b6244458", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:36:45.090297Z", - "start_time": "2022-11-10T23:36:37.985438Z" + "end_time": "2022-12-08T22:29:18.130324Z", + "start_time": "2022-12-08T22:29:10.476669Z" } }, "outputs": [ @@ -885,8 +884,8 @@ "id": "4184a17f", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:36:56.817095Z", - "start_time": "2022-11-10T23:36:45.091656Z" + "end_time": "2022-12-08T22:29:35.017003Z", + "start_time": "2022-12-08T22:29:22.073191Z" } }, "outputs": [], @@ -900,8 +899,8 @@ "id": "24036b97", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:36:56.823118Z", - "start_time": "2022-11-10T23:36:56.819185Z" + "end_time": "2022-12-08T22:31:25.117546Z", + "start_time": "2022-12-08T22:31:25.113877Z" } }, "outputs": [ @@ -957,8 +956,8 @@ "id": "8d1bbf26", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:36:56.827740Z", - "start_time": "2022-11-10T23:36:56.825013Z" + "end_time": "2022-12-08T22:31:27.948176Z", + "start_time": "2022-12-08T22:31:27.945524Z" } }, "outputs": [], @@ -973,8 +972,8 @@ "id": "8f859145", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:36:56.843236Z", - "start_time": "2022-11-10T23:36:56.829554Z" + "end_time": "2022-12-08T22:31:28.676587Z", + "start_time": "2022-12-08T22:31:28.662255Z" } }, "outputs": [], @@ -998,8 +997,8 @@ "id": "d470fa70", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:36:56.854910Z", - "start_time": "2022-11-10T23:36:56.844997Z" + "end_time": "2022-12-08T22:31:29.196071Z", + "start_time": "2022-12-08T22:31:29.185990Z" } }, "outputs": [ @@ -1101,8 +1100,8 @@ "id": "89c14528", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:36:56.868267Z", - "start_time": "2022-11-10T23:36:56.856519Z" + "end_time": "2022-12-08T22:31:32.542981Z", + "start_time": "2022-12-08T22:31:32.531357Z" } }, "outputs": [ @@ -1246,8 +1245,8 @@ "id": "8c8c04ce", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:36:56.876256Z", - "start_time": "2022-11-10T23:36:56.869775Z" + "end_time": "2022-12-08T22:31:34.577172Z", + "start_time": "2022-12-08T22:31:34.571473Z" } }, "outputs": [ @@ -1327,8 +1326,8 @@ "id": "0400e8e3", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:36:56.883393Z", - "start_time": "2022-11-10T23:36:56.878110Z" + "end_time": "2022-12-08T22:31:37.768680Z", + "start_time": "2022-12-08T22:31:37.762786Z" } }, "outputs": [], @@ -1360,8 +1359,8 @@ "id": "683a1f47", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:36:56.893336Z", - "start_time": "2022-11-10T23:36:56.885114Z" + "end_time": "2022-12-08T22:31:39.478491Z", + "start_time": "2022-12-08T22:31:39.469562Z" } }, "outputs": [ @@ -1507,14 +1506,14 @@ "id": "a7a170a6", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:00.795816Z", - "start_time": "2022-11-10T23:36:56.895374Z" + "end_time": "2022-12-08T22:31:54.652582Z", + "start_time": "2022-12-08T22:31:50.616115Z" } }, "outputs": [], "source": [ - "## using biolink 3.0.3\n", - "bmt_tool = Toolkit('https://raw.githubusercontent.com/biolink/biolink-model/v3.0.3/biolink-model.yaml')" + "## using biolink 3.1.1\n", + "bmt_tool = Toolkit('https://raw.githubusercontent.com/biolink/biolink-model/v3.1.1/biolink-model.yaml')" ] }, { @@ -1523,8 +1522,8 @@ "id": "4cc1fad9", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:01.038561Z", - "start_time": "2022-11-10T23:37:00.797345Z" + "end_time": "2022-12-08T22:31:57.948166Z", + "start_time": "2022-12-08T22:31:57.708301Z" } }, "outputs": [ @@ -1549,8 +1548,8 @@ "id": "c2c14436", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:01.052130Z", - "start_time": "2022-11-10T23:37:01.040451Z" + "end_time": "2022-12-08T22:32:06.494801Z", + "start_time": "2022-12-08T22:32:06.483991Z" } }, "outputs": [], @@ -1569,8 +1568,8 @@ "id": "044843d6", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:01.068338Z", - "start_time": "2022-11-10T23:37:01.059441Z" + "end_time": "2022-12-08T22:32:07.913079Z", + "start_time": "2022-12-08T22:32:07.904321Z" } }, "outputs": [ @@ -1670,7 +1669,7 @@ " T127\n", " Vitamin\n", " vita\n", - " None\n", + " SmallMolecule\n", " \n", " \n", " 5\n", @@ -1708,7 +1707,7 @@ "70 InformationContentEntity \n", "53 Procedure \n", "2 None \n", - "104 None \n", + "104 SmallMolecule \n", "5 None \n", "\n", "[136 rows x 4 columns]" @@ -1737,8 +1736,8 @@ "id": "7fb08392", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:01.074375Z", - "start_time": "2022-11-10T23:37:01.070031Z" + "end_time": "2022-12-08T22:32:14.164493Z", + "start_time": "2022-12-08T22:32:14.160246Z" } }, "outputs": [ @@ -1771,8 +1770,8 @@ "id": "22daf133", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:01.079466Z", - "start_time": "2022-11-10T23:37:01.076122Z" + "end_time": "2022-12-08T22:32:16.129237Z", + "start_time": "2022-12-08T22:32:16.125910Z" } }, "outputs": [], @@ -1787,8 +1786,8 @@ "id": "86caa9b9", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:01.089224Z", - "start_time": "2022-11-10T23:37:01.081153Z" + "end_time": "2022-12-08T22:32:17.092879Z", + "start_time": "2022-12-08T22:32:17.084375Z" } }, "outputs": [ @@ -1888,7 +1887,7 @@ " T127\n", " Vitamin\n", " vita\n", - " None\n", + " SmallMolecule\n", " \n", " \n", " 5\n", @@ -1926,7 +1925,7 @@ "70 InformationContentEntity \n", "53 Procedure \n", "2 None \n", - "104 None \n", + "104 SmallMolecule \n", "5 None \n", "\n", "[130 rows x 4 columns]" @@ -1973,8 +1972,8 @@ "id": "eb7ea639", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:01.094282Z", - "start_time": "2022-11-10T23:37:01.090789Z" + "end_time": "2022-12-08T22:32:25.434077Z", + "start_time": "2022-12-08T22:32:25.429953Z" } }, "outputs": [ @@ -2007,12 +2006,12 @@ }, { "cell_type": "code", - "execution_count": 33, + "execution_count": 36, "id": "fc902a02", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:01.102687Z", - "start_time": "2022-11-10T23:37:01.096040Z" + "end_time": "2022-12-08T22:37:18.272245Z", + "start_time": "2022-12-08T22:37:18.264993Z" } }, "outputs": [ @@ -2068,7 +2067,7 @@ "76 T086 Nucleotide Sequence nusq NucleicAcidEntity" ] }, - "execution_count": 33, + "execution_count": 36, "metadata": {}, "output_type": "execute_result" } @@ -2080,12 +2079,12 @@ }, { "cell_type": "code", - "execution_count": 34, + "execution_count": 37, "id": "e641ae5c", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:01.110880Z", - "start_time": "2022-11-10T23:37:01.104941Z" + "end_time": "2022-12-08T22:37:22.217049Z", + "start_time": "2022-12-08T22:37:22.211016Z" } }, "outputs": [], @@ -2119,12 +2118,12 @@ }, { "cell_type": "code", - "execution_count": 35, + "execution_count": 38, "id": "a3a9da81", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:01.118256Z", - "start_time": "2022-11-10T23:37:01.112622Z" + "end_time": "2022-12-08T22:37:25.919984Z", + "start_time": "2022-12-08T22:37:25.914548Z" } }, "outputs": [], @@ -2201,12 +2200,12 @@ }, { "cell_type": "code", - "execution_count": 36, + "execution_count": 39, "id": "308358e6", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:09.722837Z", - "start_time": "2022-11-10T23:37:01.119896Z" + "end_time": "2022-12-08T22:37:38.499909Z", + "start_time": "2022-12-08T22:37:29.306458Z" } }, "outputs": [], @@ -2221,12 +2220,12 @@ }, { "cell_type": "code", - "execution_count": 37, + "execution_count": 40, "id": "67861c2e", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:13.272563Z", - "start_time": "2022-11-10T23:37:09.724834Z" + "end_time": "2022-12-08T22:37:43.823900Z", + "start_time": "2022-12-08T22:37:40.033835Z" } }, "outputs": [ @@ -2236,7 +2235,7 @@ "41" ] }, - "execution_count": 37, + "execution_count": 40, "metadata": {}, "output_type": "execute_result" }, @@ -2246,7 +2245,7 @@ "41" ] }, - "execution_count": 37, + "execution_count": 40, "metadata": {}, "output_type": "execute_result" }, @@ -2256,7 +2255,7 @@ "26" ] }, - "execution_count": 37, + "execution_count": 40, "metadata": {}, "output_type": "execute_result" } @@ -2274,12 +2273,12 @@ }, { "cell_type": "code", - "execution_count": 38, + "execution_count": 41, "id": "647e4065", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:13.283870Z", - "start_time": "2022-11-10T23:37:13.274214Z" + "end_time": "2022-12-08T22:38:02.698485Z", + "start_time": "2022-12-08T22:38:02.688368Z" } }, "outputs": [ @@ -2690,7 +2689,7 @@ "104 SmallMolecule " ] }, - "execution_count": 38, + "execution_count": 41, "metadata": {}, "output_type": "execute_result" } @@ -2709,12 +2708,12 @@ }, { "cell_type": "code", - "execution_count": 39, + "execution_count": 56, "id": "52496738", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:13.290523Z", - "start_time": "2022-11-10T23:37:13.285751Z" + "end_time": "2022-12-08T22:44:21.125724Z", + "start_time": "2022-12-08T22:44:21.120802Z" } }, "outputs": [], @@ -2739,12 +2738,12 @@ }, { "cell_type": "code", - "execution_count": 40, + "execution_count": 57, "id": "b05e90f6", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:13.296784Z", - "start_time": "2022-11-10T23:37:13.292677Z" + "end_time": "2022-12-08T22:44:24.097893Z", + "start_time": "2022-12-08T22:44:24.093032Z" } }, "outputs": [ @@ -2760,7 +2759,7 @@ " 'stimulates']" ] }, - "execution_count": 40, + "execution_count": 57, "metadata": {}, "output_type": "execute_result" } @@ -2790,12 +2789,12 @@ }, { "cell_type": "code", - "execution_count": 41, + "execution_count": 58, "id": "6a3d217d", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:13.310439Z", - "start_time": "2022-11-10T23:37:13.298432Z" + "end_time": "2022-12-08T22:44:27.342103Z", + "start_time": "2022-12-08T22:44:27.329141Z" } }, "outputs": [], @@ -2816,29 +2815,139 @@ }, { "cell_type": "code", - "execution_count": 42, + "execution_count": 59, "id": "ec402da4", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:13.315520Z", - "start_time": "2022-11-10T23:37:13.312135Z" + "end_time": "2022-12-08T22:44:28.446863Z", + "start_time": "2022-12-08T22:44:28.437777Z" } }, - "outputs": [], + "outputs": [ + { + "data": { + "text/html": [ + "
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SemmedPredSemmed_in_BM
162adjacent_toSEMMEDDB:ADJACENT_TO
54administered_toSEMMEDDB:ADMINISTERED_TO
145affectsSEMMEDDB:AFFECTS
176analyzesSEMMEDDB:ANALYZES
158assesses_effect_ofSEMMEDDB:ASSESSES_EFFECT_OF
.........
130temporally_related_toSEMMEDDB:TEMPORALLY_RELATED_TO
166traversesSEMMEDDB:TRAVERSES
148treatsSEMMEDDB:TREATS
178tributary_ofSEMMEDDB:TRIBUTARY_OF
149usesSEMMEDDB:USES
\n", + "

61 rows × 2 columns

\n", + "
" + ], + "text/plain": [ + " SemmedPred Semmed_in_BM\n", + "162 adjacent_to SEMMEDDB:ADJACENT_TO\n", + "54 administered_to SEMMEDDB:ADMINISTERED_TO\n", + "145 affects SEMMEDDB:AFFECTS\n", + "176 analyzes SEMMEDDB:ANALYZES\n", + "158 assesses_effect_of SEMMEDDB:ASSESSES_EFFECT_OF\n", + ".. ... ...\n", + "130 temporally_related_to SEMMEDDB:TEMPORALLY_RELATED_TO\n", + "166 traverses SEMMEDDB:TRAVERSES\n", + "148 treats SEMMEDDB:TREATS\n", + "178 tributary_of SEMMEDDB:TRIBUTARY_OF\n", + "149 uses SEMMEDDB:USES\n", + "\n", + "[61 rows x 2 columns]" + ] + }, + "execution_count": 59, + "metadata": {}, + "output_type": "execute_result" + } + ], "source": [ "## since biolink model doesn't use hyphens\n", "SEMMED_predicates['Semmed_in_BM']= ['SEMMEDDB:'+i \n", - " for i in SEMMED_predicates['SemmedPred'].str.replace(\"-\", \"\")]" + " for i in SEMMED_predicates['SemmedPred'].str.replace(\"-\", \"\")]\n", + "SEMMED_predicates['Semmed_in_BM'] = SEMMED_predicates['Semmed_in_BM'].str.upper()\n", + "SEMMED_predicates" ] }, { "cell_type": "code", - "execution_count": 43, + "execution_count": 60, "id": "979e0da8", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:13.330940Z", - "start_time": "2022-11-10T23:37:13.317544Z" + "end_time": "2022-12-08T22:44:32.575017Z", + "start_time": "2022-12-08T22:44:32.571085Z" } }, "outputs": [], @@ -2853,12 +2962,12 @@ }, { "cell_type": "code", - "execution_count": 44, + "execution_count": 61, "id": "5d7f7944", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:13.344186Z", - "start_time": "2022-11-10T23:37:13.332653Z" + "end_time": "2022-12-08T22:44:33.408136Z", + "start_time": "2022-12-08T22:44:33.397951Z" } }, "outputs": [ @@ -2868,7 +2977,7 @@ "26" ] }, - "execution_count": 44, + "execution_count": 61, "metadata": {}, "output_type": "execute_result" }, @@ -2902,157 +3011,157 @@ " \n", " 54\n", " administered_to\n", - " SEMMEDDB:administered_to\n", + " SEMMEDDB:ADMINISTERED_TO\n", " affects\n", " \n", " \n", " 145\n", " affects\n", - " SEMMEDDB:affects\n", + " SEMMEDDB:AFFECTS\n", " affects\n", " \n", " \n", " 160\n", " associated_with\n", - " SEMMEDDB:associated_with\n", - " associated_with\n", + " SEMMEDDB:ASSOCIATED_WITH\n", + " related_to\n", " \n", " \n", " 55\n", " augments\n", - " SEMMEDDB:augments\n", - " entity_positively_regulates_entity\n", + " SEMMEDDB:AUGMENTS\n", + " None\n", " \n", " \n", " 141\n", " causes\n", - " SEMMEDDB:causes\n", + " SEMMEDDB:CAUSES\n", " causes\n", " \n", " \n", " 56\n", " coexists_with\n", - " SEMMEDDB:coexists_with\n", + " SEMMEDDB:COEXISTS_WITH\n", " coexists_with\n", " \n", " \n", " 143\n", " complicates\n", - " SEMMEDDB:complicates\n", + " SEMMEDDB:COMPLICATES\n", " exacerbates\n", " \n", " \n", " 57\n", " converts_to\n", - " SEMMEDDB:converts_to\n", + " SEMMEDDB:CONVERTS_TO\n", " derives_into\n", " \n", " \n", " 157\n", " diagnoses\n", - " SEMMEDDB:diagnoses\n", + " SEMMEDDB:DIAGNOSES\n", " diagnoses\n", " \n", " \n", " 140\n", " disrupts\n", - " SEMMEDDB:disrupts\n", + " SEMMEDDB:DISRUPTS\n", " disrupts\n", " \n", " \n", " 58\n", " inhibits\n", - " SEMMEDDB:inhibits\n", - " entity_negatively_regulates_entity\n", + " SEMMEDDB:INHIBITS\n", + " None\n", " \n", " \n", " 136\n", " interacts_with\n", - " SEMMEDDB:interacts_with\n", + " SEMMEDDB:INTERACTS_WITH\n", " interacts_with\n", " \n", " \n", " 129\n", " location_of\n", - " SEMMEDDB:location_of\n", + " SEMMEDDB:LOCATION_OF\n", " location_of\n", " \n", " \n", " 144\n", " manifestation_of\n", - " SEMMEDDB:manifestation_of\n", + " SEMMEDDB:MANIFESTATION_OF\n", " manifestation_of\n", " \n", " \n", " 156\n", " measures\n", - " SEMMEDDB:measures\n", + " SEMMEDDB:MEASURES\n", " quantifier_qualifier\n", " \n", " \n", " 171\n", " method_of\n", - " SEMMEDDB:method_of\n", + " SEMMEDDB:METHOD_OF\n", " None\n", " \n", " \n", " 146\n", " occurs_in\n", - " SEMMEDDB:occurs_in\n", + " SEMMEDDB:OCCURS_IN\n", " occurs_in\n", " \n", " \n", " 127\n", " part_of\n", - " SEMMEDDB:part_of\n", + " SEMMEDDB:PART_OF\n", " part_of\n", " \n", " \n", " 132\n", " precedes\n", - " SEMMEDDB:precedes\n", + " SEMMEDDB:PRECEDES\n", " precedes\n", " \n", " \n", " 59\n", " predisposes\n", - " SEMMEDDB:predisposes\n", + " SEMMEDDB:PREDISPOSES\n", " predisposes\n", " \n", " \n", " 142\n", " prevents\n", - " SEMMEDDB:prevents\n", + " SEMMEDDB:PREVENTS\n", " prevents\n", " \n", " \n", " 134\n", " process_of\n", - " SEMMEDDB:process_of\n", + " SEMMEDDB:PROCESS_OF\n", " occurs_in\n", " \n", " \n", " 138\n", " produces\n", - " SEMMEDDB:produces\n", + " SEMMEDDB:PRODUCES\n", " produces\n", " \n", " \n", " 60\n", " stimulates\n", - " SEMMEDDB:stimulates\n", - " entity_positively_regulates_entity\n", + " SEMMEDDB:STIMULATES\n", + " None\n", " \n", " \n", " 148\n", " treats\n", - " SEMMEDDB:treats\n", + " SEMMEDDB:TREATS\n", " treats\n", " \n", " \n", " 149\n", " uses\n", - " SEMMEDDB:uses\n", + " SEMMEDDB:USES\n", " has_input\n", " \n", " \n", @@ -3060,64 +3169,36 @@ "" ], "text/plain": [ - " SemmedPred Semmed_in_BM \\\n", - "54 administered_to SEMMEDDB:administered_to \n", - "145 affects SEMMEDDB:affects \n", - "160 associated_with SEMMEDDB:associated_with \n", - "55 augments SEMMEDDB:augments \n", - "141 causes SEMMEDDB:causes \n", - "56 coexists_with SEMMEDDB:coexists_with \n", - "143 complicates SEMMEDDB:complicates \n", - "57 converts_to SEMMEDDB:converts_to \n", - "157 diagnoses SEMMEDDB:diagnoses \n", - "140 disrupts SEMMEDDB:disrupts \n", - "58 inhibits SEMMEDDB:inhibits \n", - "136 interacts_with SEMMEDDB:interacts_with \n", - "129 location_of SEMMEDDB:location_of \n", - "144 manifestation_of SEMMEDDB:manifestation_of \n", - "156 measures SEMMEDDB:measures \n", - "171 method_of SEMMEDDB:method_of \n", - "146 occurs_in SEMMEDDB:occurs_in \n", - "127 part_of SEMMEDDB:part_of \n", - "132 precedes SEMMEDDB:precedes \n", - "59 predisposes SEMMEDDB:predisposes \n", - "142 prevents SEMMEDDB:prevents \n", - "134 process_of SEMMEDDB:process_of \n", - "138 produces SEMMEDDB:produces \n", - "60 stimulates SEMMEDDB:stimulates \n", - "148 treats SEMMEDDB:treats \n", - "149 uses SEMMEDDB:uses \n", - "\n", - " BMPred \n", - "54 affects \n", - "145 affects \n", - "160 associated_with \n", - "55 entity_positively_regulates_entity \n", - "141 causes \n", - "56 coexists_with \n", - "143 exacerbates \n", - "57 derives_into \n", - "157 diagnoses \n", - "140 disrupts \n", - "58 entity_negatively_regulates_entity \n", - "136 interacts_with \n", - "129 location_of \n", - "144 manifestation_of \n", - "156 quantifier_qualifier \n", - "171 None \n", - "146 occurs_in \n", - "127 part_of \n", - "132 precedes \n", - "59 predisposes \n", - "142 prevents \n", - "134 occurs_in \n", - "138 produces \n", - "60 entity_positively_regulates_entity \n", - "148 treats \n", - "149 has_input " + " SemmedPred Semmed_in_BM BMPred\n", + "54 administered_to SEMMEDDB:ADMINISTERED_TO affects\n", + "145 affects SEMMEDDB:AFFECTS affects\n", + "160 associated_with SEMMEDDB:ASSOCIATED_WITH related_to\n", + "55 augments SEMMEDDB:AUGMENTS None\n", + "141 causes SEMMEDDB:CAUSES causes\n", + "56 coexists_with SEMMEDDB:COEXISTS_WITH coexists_with\n", + "143 complicates SEMMEDDB:COMPLICATES exacerbates\n", + "57 converts_to SEMMEDDB:CONVERTS_TO derives_into\n", + "157 diagnoses SEMMEDDB:DIAGNOSES diagnoses\n", + "140 disrupts SEMMEDDB:DISRUPTS disrupts\n", + "58 inhibits SEMMEDDB:INHIBITS None\n", + "136 interacts_with SEMMEDDB:INTERACTS_WITH interacts_with\n", + "129 location_of SEMMEDDB:LOCATION_OF location_of\n", + "144 manifestation_of SEMMEDDB:MANIFESTATION_OF manifestation_of\n", + "156 measures SEMMEDDB:MEASURES quantifier_qualifier\n", + "171 method_of SEMMEDDB:METHOD_OF None\n", + "146 occurs_in SEMMEDDB:OCCURS_IN occurs_in\n", + "127 part_of SEMMEDDB:PART_OF part_of\n", + "132 precedes SEMMEDDB:PRECEDES precedes\n", + "59 predisposes SEMMEDDB:PREDISPOSES predisposes\n", + "142 prevents SEMMEDDB:PREVENTS prevents\n", + "134 process_of SEMMEDDB:PROCESS_OF occurs_in\n", + "138 produces SEMMEDDB:PRODUCES produces\n", + "60 stimulates SEMMEDDB:STIMULATES None\n", + "148 treats SEMMEDDB:TREATS treats\n", + "149 uses SEMMEDDB:USES has_input" ] }, - "execution_count": 44, + "execution_count": 61, "metadata": {}, "output_type": "execute_result" } @@ -3139,8 +3220,7 @@ "\n", "Review the mappings in the table printed by the previous code chunk. \n", "\n", - "For the biolink 3.0.3 update, we:\n", - "* map semmeddb `associated_with` to biolink's `related_to` because biolink's `associated_with` definition says it must be a statistical relationship, which doesn't seem quite right for what semmeddb is doing. \n", + "For the biolink 3.1.1 update, we:\n", "* map semmeddb `augments` and `stimulates` to biolink's `affects` with qualifiers: \n", " * qualified_predicate: causes\n", " * object_aspect_qualifier: activity_or_abundance\n", @@ -3151,7 +3231,7 @@ " * object_direction_qualifier: decreased\n", "\n", "Notes:\n", - "* keeping the mapping for semmeddb `administered_to` and biolink-model's `affects` but feel like it's not quite right since it's \"trying something out with a goal\", not that it actually does something...see [definition](https://uts.nlm.nih.gov/uts/umls/semantic-network/T154)\n", + "* keeping the mapping for semmeddb `administered_to` to biolink-model's `affects` but feel like it's not quite right since it's \"trying something out with a goal\", not that it actually does something...see [definition](https://uts.nlm.nih.gov/uts/umls/semantic-network/T154)\n", "* semmeddb `diagnoses` is more of a \"this thing distinguishes / identifies this other thing\"...see [definition](https://uts.nlm.nih.gov/uts/umls/semantic-network/T163)\n", "* semmeddb `process_of` does seem to map well to biolink-model's `occurs_in` so...okay. As an example, see the use of `process_of` in the [API's data](https://biothings.ncats.io/semmeddb/query?q=predicate:PROCESS_OF%20AND%20object.semantic_type_abbreviation:cell)\n", "* keeping semmeddb `treats` is more general than biolink-model's `treats`. It's more of \"trying this out as a treatment\". see [definition](https://uts.nlm.nih.gov/uts/umls/semantic-network/T154)" @@ -3159,29 +3239,12 @@ }, { "cell_type": "code", - "execution_count": 45, - "id": "d613ec2f", - "metadata": { - "ExecuteTime": { - "end_time": "2022-11-10T23:37:13.348696Z", - "start_time": "2022-11-10T23:37:13.346027Z" - } - }, - "outputs": [], - "source": [ - "## simple change: use biolink's related_to for semmed's associated_with\n", - "SEMMED_predicates.loc[\n", - " (SEMMED_predicates['SemmedPred'] == 'associated_with'),'BMPred'] = 'related_to'" - ] - }, - { - "cell_type": "code", - "execution_count": 46, + "execution_count": 63, "id": "77adf097", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:13.358866Z", - "start_time": "2022-11-10T23:37:13.350431Z" + "end_time": "2022-12-08T22:48:18.767288Z", + "start_time": "2022-12-08T22:48:18.758192Z" } }, "outputs": [], @@ -3201,13 +3264,14 @@ "## Next, mutate the rows for biolink predicates being remapping to predicates + qualifiers\n", "for index in SEMMED_predicates.index:\n", " ## semmeddb augments and stimulates should change\n", - " if SEMMED_predicates.loc[index,'BMPred']=='entity_positively_regulates_entity':\n", + " if (SEMMED_predicates.loc[index,'SemmedPred']=='augments') or \\\n", + " (SEMMED_predicates.loc[index,'SemmedPred']=='stimulates'):\n", " SEMMED_predicates.loc[index,'BMPred'] = 'affects'\n", " SEMMED_predicates.loc[index,'BMQualPred'] = 'causes'\n", " SEMMED_predicates.loc[index,'BMObjAsp'] = 'activity_or_abundance'\n", " SEMMED_predicates.loc[index,'BMObjDirect'] = 'increased'\n", " ## semmeddb inhibits should change\n", - " elif SEMMED_predicates.loc[index,'BMPred']=='entity_negatively_regulates_entity':\n", + " elif SEMMED_predicates.loc[index,'SemmedPred']=='inhibits':\n", " SEMMED_predicates.loc[index,'BMPred'] = 'affects'\n", " SEMMED_predicates.loc[index,'BMQualPred'] = 'causes'\n", " SEMMED_predicates.loc[index,'BMObjAsp'] = 'activity_or_abundance'\n", @@ -3216,12 +3280,12 @@ }, { "cell_type": "code", - "execution_count": 47, + "execution_count": 65, "id": "80e84505", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:13.363649Z", - "start_time": "2022-11-10T23:37:13.360690Z" + "end_time": "2022-12-08T22:48:42.090594Z", + "start_time": "2022-12-08T22:48:42.087303Z" } }, "outputs": [], @@ -3232,12 +3296,12 @@ }, { "cell_type": "code", - "execution_count": 48, + "execution_count": 66, "id": "52cfbbc4", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:13.371724Z", - "start_time": "2022-11-10T23:37:13.365595Z" + "end_time": "2022-12-08T22:48:51.794628Z", + "start_time": "2022-12-08T22:48:51.788663Z" } }, "outputs": [], @@ -3262,12 +3326,12 @@ }, { "cell_type": "code", - "execution_count": 49, + "execution_count": 67, "id": "9718fe3a", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:13.384904Z", - "start_time": "2022-11-10T23:37:13.373836Z" + "end_time": "2022-12-08T22:48:52.600722Z", + "start_time": "2022-12-08T22:48:52.589092Z" } }, "outputs": [ @@ -3306,7 +3370,7 @@ " \n", " 54\n", " administered_to\n", - " SEMMEDDB:administered_to\n", + " SEMMEDDB:ADMINISTERED_TO\n", " affects\n", " None\n", " None\n", @@ -3317,7 +3381,7 @@ " \n", " 145\n", " affects\n", - " SEMMEDDB:affects\n", + " SEMMEDDB:AFFECTS\n", " affects\n", " None\n", " None\n", @@ -3328,7 +3392,7 @@ " \n", " 160\n", " associated_with\n", - " SEMMEDDB:associated_with\n", + " SEMMEDDB:ASSOCIATED_WITH\n", " related_to\n", " None\n", " None\n", @@ -3339,7 +3403,7 @@ " \n", " 55\n", " augments\n", - " SEMMEDDB:augments\n", + " SEMMEDDB:AUGMENTS\n", " affects\n", " causes\n", " activity_or_abundance\n", @@ -3350,7 +3414,7 @@ " \n", " 141\n", " causes\n", - " SEMMEDDB:causes\n", + " SEMMEDDB:CAUSES\n", " causes\n", " None\n", " None\n", @@ -3361,7 +3425,7 @@ " \n", " 56\n", " coexists_with\n", - " SEMMEDDB:coexists_with\n", + " SEMMEDDB:COEXISTS_WITH\n", " coexists_with\n", " None\n", " None\n", @@ -3372,7 +3436,7 @@ " \n", " 143\n", " complicates\n", - " SEMMEDDB:complicates\n", + " SEMMEDDB:COMPLICATES\n", " exacerbates\n", " None\n", " None\n", @@ -3383,7 +3447,7 @@ " \n", " 57\n", " converts_to\n", - " SEMMEDDB:converts_to\n", + " SEMMEDDB:CONVERTS_TO\n", " derives_into\n", " None\n", " None\n", @@ -3394,7 +3458,7 @@ " \n", " 157\n", " diagnoses\n", - " SEMMEDDB:diagnoses\n", + " SEMMEDDB:DIAGNOSES\n", " diagnoses\n", " None\n", " None\n", @@ -3405,7 +3469,7 @@ " \n", " 140\n", " disrupts\n", - " SEMMEDDB:disrupts\n", + " SEMMEDDB:DISRUPTS\n", " disrupts\n", " None\n", " None\n", @@ -3416,7 +3480,7 @@ " \n", " 58\n", " inhibits\n", - " SEMMEDDB:inhibits\n", + " SEMMEDDB:INHIBITS\n", " affects\n", " causes\n", " activity_or_abundance\n", @@ -3427,7 +3491,7 @@ " \n", " 136\n", " interacts_with\n", - " SEMMEDDB:interacts_with\n", + " SEMMEDDB:INTERACTS_WITH\n", " interacts_with\n", " None\n", " None\n", @@ -3438,18 +3502,18 @@ " \n", " 172\n", " isa\n", - " SEMMEDDB:isa\n", + " SEMMEDDB:ISA\n", " subclass_of\n", " None\n", " None\n", " None\n", - " superclass_of\n", + " subclass_of\n", " None\n", " \n", " \n", " 129\n", " location_of\n", - " SEMMEDDB:location_of\n", + " SEMMEDDB:LOCATION_OF\n", " location_of\n", " None\n", " None\n", @@ -3460,7 +3524,7 @@ " \n", " 144\n", " manifestation_of\n", - " SEMMEDDB:manifestation_of\n", + " SEMMEDDB:MANIFESTATION_OF\n", " manifestation_of\n", " None\n", " None\n", @@ -3471,7 +3535,7 @@ " \n", " 156\n", " measures\n", - " SEMMEDDB:measures\n", + " SEMMEDDB:MEASURES\n", " quantifier_qualifier\n", " None\n", " None\n", @@ -3482,7 +3546,7 @@ " \n", " 146\n", " occurs_in\n", - " SEMMEDDB:occurs_in\n", + " SEMMEDDB:OCCURS_IN\n", " occurs_in\n", " None\n", " None\n", @@ -3493,7 +3557,7 @@ " \n", " 127\n", " part_of\n", - " SEMMEDDB:part_of\n", + " SEMMEDDB:PART_OF\n", " part_of\n", " None\n", " None\n", @@ -3504,7 +3568,7 @@ " \n", " 132\n", " precedes\n", - " SEMMEDDB:precedes\n", + " SEMMEDDB:PRECEDES\n", " precedes\n", " None\n", " None\n", @@ -3515,7 +3579,7 @@ " \n", " 59\n", " predisposes\n", - " SEMMEDDB:predisposes\n", + " SEMMEDDB:PREDISPOSES\n", " predisposes\n", " None\n", " None\n", @@ -3526,7 +3590,7 @@ " \n", " 142\n", " prevents\n", - " SEMMEDDB:prevents\n", + " SEMMEDDB:PREVENTS\n", " prevents\n", " None\n", " None\n", @@ -3537,7 +3601,7 @@ " \n", " 134\n", " process_of\n", - " SEMMEDDB:process_of\n", + " SEMMEDDB:PROCESS_OF\n", " occurs_in\n", " None\n", " None\n", @@ -3548,7 +3612,7 @@ " \n", " 138\n", " produces\n", - " SEMMEDDB:produces\n", + " SEMMEDDB:PRODUCES\n", " produces\n", " None\n", " None\n", @@ -3559,7 +3623,7 @@ " \n", " 60\n", " stimulates\n", - " SEMMEDDB:stimulates\n", + " SEMMEDDB:STIMULATES\n", " affects\n", " causes\n", " activity_or_abundance\n", @@ -3570,7 +3634,7 @@ " \n", " 148\n", " treats\n", - " SEMMEDDB:treats\n", + " SEMMEDDB:TREATS\n", " treats\n", " None\n", " None\n", @@ -3581,7 +3645,7 @@ " \n", " 149\n", " uses\n", - " SEMMEDDB:uses\n", + " SEMMEDDB:USES\n", " has_input\n", " None\n", " None\n", @@ -3595,32 +3659,32 @@ ], "text/plain": [ " SemmedPred Semmed_in_BM BMPred \\\n", - "54 administered_to SEMMEDDB:administered_to affects \n", - "145 affects SEMMEDDB:affects affects \n", - "160 associated_with SEMMEDDB:associated_with related_to \n", - "55 augments SEMMEDDB:augments affects \n", - "141 causes SEMMEDDB:causes causes \n", - "56 coexists_with SEMMEDDB:coexists_with coexists_with \n", - "143 complicates SEMMEDDB:complicates exacerbates \n", - "57 converts_to SEMMEDDB:converts_to derives_into \n", - "157 diagnoses SEMMEDDB:diagnoses diagnoses \n", - "140 disrupts SEMMEDDB:disrupts disrupts \n", - "58 inhibits SEMMEDDB:inhibits affects \n", - "136 interacts_with SEMMEDDB:interacts_with interacts_with \n", - "172 isa SEMMEDDB:isa subclass_of \n", - "129 location_of SEMMEDDB:location_of location_of \n", - "144 manifestation_of SEMMEDDB:manifestation_of manifestation_of \n", - "156 measures SEMMEDDB:measures quantifier_qualifier \n", - "146 occurs_in SEMMEDDB:occurs_in occurs_in \n", - "127 part_of SEMMEDDB:part_of part_of \n", - "132 precedes SEMMEDDB:precedes precedes \n", - "59 predisposes SEMMEDDB:predisposes predisposes \n", - "142 prevents SEMMEDDB:prevents prevents \n", - "134 process_of SEMMEDDB:process_of occurs_in \n", - "138 produces SEMMEDDB:produces produces \n", - "60 stimulates SEMMEDDB:stimulates affects \n", - "148 treats SEMMEDDB:treats treats \n", - "149 uses SEMMEDDB:uses has_input \n", + "54 administered_to SEMMEDDB:ADMINISTERED_TO affects \n", + "145 affects SEMMEDDB:AFFECTS affects \n", + "160 associated_with SEMMEDDB:ASSOCIATED_WITH related_to \n", + "55 augments SEMMEDDB:AUGMENTS affects \n", + "141 causes SEMMEDDB:CAUSES causes \n", + "56 coexists_with SEMMEDDB:COEXISTS_WITH coexists_with \n", + "143 complicates SEMMEDDB:COMPLICATES exacerbates \n", + "57 converts_to SEMMEDDB:CONVERTS_TO derives_into \n", + "157 diagnoses SEMMEDDB:DIAGNOSES diagnoses \n", + "140 disrupts SEMMEDDB:DISRUPTS disrupts \n", + "58 inhibits SEMMEDDB:INHIBITS affects \n", + "136 interacts_with SEMMEDDB:INTERACTS_WITH interacts_with \n", + "172 isa SEMMEDDB:ISA subclass_of \n", + "129 location_of SEMMEDDB:LOCATION_OF location_of \n", + "144 manifestation_of SEMMEDDB:MANIFESTATION_OF manifestation_of \n", + "156 measures SEMMEDDB:MEASURES quantifier_qualifier \n", + "146 occurs_in SEMMEDDB:OCCURS_IN occurs_in \n", + "127 part_of SEMMEDDB:PART_OF part_of \n", + "132 precedes SEMMEDDB:PRECEDES precedes \n", + "59 predisposes SEMMEDDB:PREDISPOSES predisposes \n", + "142 prevents SEMMEDDB:PREVENTS prevents \n", + "134 process_of SEMMEDDB:PROCESS_OF occurs_in \n", + "138 produces SEMMEDDB:PRODUCES produces \n", + "60 stimulates SEMMEDDB:STIMULATES affects \n", + "148 treats SEMMEDDB:TREATS treats \n", + "149 uses SEMMEDDB:USES has_input \n", "\n", " BMQualPred BMObjAsp BMObjDirect BMPred_Inv \\\n", "54 None None None affected_by \n", @@ -3635,7 +3699,7 @@ "140 None None None disrupted_by \n", "58 causes activity_or_abundance decreased affected_by \n", "136 None None None interacts_with \n", - "172 None None None superclass_of \n", + "172 None None None subclass_of \n", "129 None None None located_in \n", "144 None None None has_manifestation \n", "156 None None None quantifier_qualifier \n", @@ -3679,7 +3743,7 @@ "149 None " ] }, - "execution_count": 49, + "execution_count": 67, "metadata": {}, "output_type": "execute_result" } @@ -3702,19 +3766,19 @@ "\n", "
\n", "\n", - "However, for the biolink 3.0.3 update, we need more than the inverted predicates...we need the qualifiers for the reverse operations:\n", + "However, for the biolink 3.1.1 update, we need more than the inverted predicates...we need the qualifiers for the reverse operations:\n", "* \"object_\" qualifiers will invert to \"subject_\" qualifiers, but will keep their exact value \n", "* Already did above: when retrieving the inverted predicates, we also retrieved the inverted qualified_predicates\n" ] }, { "cell_type": "code", - "execution_count": 50, + "execution_count": 68, "id": "6dfd3797", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:13.389925Z", - "start_time": "2022-11-10T23:37:13.386515Z" + "end_time": "2022-12-08T22:50:23.945946Z", + "start_time": "2022-12-08T22:50:23.942532Z" } }, "outputs": [], @@ -3725,12 +3789,12 @@ }, { "cell_type": "code", - "execution_count": 51, + "execution_count": 69, "id": "f7239c6f", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:13.403092Z", - "start_time": "2022-11-10T23:37:13.391641Z" + "end_time": "2022-12-08T22:50:24.643086Z", + "start_time": "2022-12-08T22:50:24.630246Z" }, "scrolled": true }, @@ -3772,7 +3836,7 @@ " \n", " 54\n", " administered_to\n", - " SEMMEDDB:administered_to\n", + " SEMMEDDB:ADMINISTERED_TO\n", " affects\n", " None\n", " None\n", @@ -3785,7 +3849,7 @@ " \n", " 145\n", " affects\n", - " SEMMEDDB:affects\n", + " SEMMEDDB:AFFECTS\n", " affects\n", " None\n", " None\n", @@ -3798,7 +3862,7 @@ " \n", " 160\n", " associated_with\n", - " SEMMEDDB:associated_with\n", + " SEMMEDDB:ASSOCIATED_WITH\n", " related_to\n", " None\n", " None\n", @@ -3811,7 +3875,7 @@ " \n", " 55\n", " augments\n", - " SEMMEDDB:augments\n", + " SEMMEDDB:AUGMENTS\n", " affects\n", " causes\n", " activity_or_abundance\n", @@ -3824,7 +3888,7 @@ " \n", " 141\n", " causes\n", - " SEMMEDDB:causes\n", + " SEMMEDDB:CAUSES\n", " causes\n", " None\n", " None\n", @@ -3837,7 +3901,7 @@ " \n", " 56\n", " coexists_with\n", - " SEMMEDDB:coexists_with\n", + " SEMMEDDB:COEXISTS_WITH\n", " coexists_with\n", " None\n", " None\n", @@ -3850,7 +3914,7 @@ " \n", " 143\n", " complicates\n", - " SEMMEDDB:complicates\n", + " SEMMEDDB:COMPLICATES\n", " exacerbates\n", " None\n", " None\n", @@ -3863,7 +3927,7 @@ " \n", " 57\n", " converts_to\n", - " SEMMEDDB:converts_to\n", + " SEMMEDDB:CONVERTS_TO\n", " derives_into\n", " None\n", " None\n", @@ -3876,7 +3940,7 @@ " \n", " 157\n", " diagnoses\n", - " SEMMEDDB:diagnoses\n", + " SEMMEDDB:DIAGNOSES\n", " diagnoses\n", " None\n", " None\n", @@ -3889,7 +3953,7 @@ " \n", " 140\n", " disrupts\n", - " SEMMEDDB:disrupts\n", + " SEMMEDDB:DISRUPTS\n", " disrupts\n", " None\n", " None\n", @@ -3902,7 +3966,7 @@ " \n", " 58\n", " inhibits\n", - " SEMMEDDB:inhibits\n", + " SEMMEDDB:INHIBITS\n", " affects\n", " causes\n", " activity_or_abundance\n", @@ -3915,7 +3979,7 @@ " \n", " 136\n", " interacts_with\n", - " SEMMEDDB:interacts_with\n", + " SEMMEDDB:INTERACTS_WITH\n", " interacts_with\n", " None\n", " None\n", @@ -3928,12 +3992,12 @@ " \n", " 172\n", " isa\n", - " SEMMEDDB:isa\n", + " SEMMEDDB:ISA\n", " subclass_of\n", " None\n", " None\n", " None\n", - " superclass_of\n", + " subclass_of\n", " None\n", " None\n", " None\n", @@ -3941,7 +4005,7 @@ " \n", " 129\n", " location_of\n", - " SEMMEDDB:location_of\n", + " SEMMEDDB:LOCATION_OF\n", " location_of\n", " None\n", " None\n", @@ -3954,7 +4018,7 @@ " \n", " 144\n", " manifestation_of\n", - " SEMMEDDB:manifestation_of\n", + " SEMMEDDB:MANIFESTATION_OF\n", " manifestation_of\n", " None\n", " None\n", @@ -3967,7 +4031,7 @@ " \n", " 156\n", " measures\n", - " SEMMEDDB:measures\n", + " SEMMEDDB:MEASURES\n", " quantifier_qualifier\n", " None\n", " None\n", @@ -3980,7 +4044,7 @@ " \n", " 146\n", " occurs_in\n", - " SEMMEDDB:occurs_in\n", + " SEMMEDDB:OCCURS_IN\n", " occurs_in\n", " None\n", " None\n", @@ -3993,7 +4057,7 @@ " \n", " 127\n", " part_of\n", - " SEMMEDDB:part_of\n", + " SEMMEDDB:PART_OF\n", " part_of\n", " None\n", " None\n", @@ -4006,7 +4070,7 @@ " \n", " 132\n", " precedes\n", - " SEMMEDDB:precedes\n", + " SEMMEDDB:PRECEDES\n", " precedes\n", " None\n", " None\n", @@ -4019,7 +4083,7 @@ " \n", " 59\n", " predisposes\n", - " SEMMEDDB:predisposes\n", + " SEMMEDDB:PREDISPOSES\n", " predisposes\n", " None\n", " None\n", @@ -4032,7 +4096,7 @@ " \n", " 142\n", " prevents\n", - " SEMMEDDB:prevents\n", + " SEMMEDDB:PREVENTS\n", " prevents\n", " None\n", " None\n", @@ -4045,7 +4109,7 @@ " \n", " 134\n", " process_of\n", - " SEMMEDDB:process_of\n", + " SEMMEDDB:PROCESS_OF\n", " occurs_in\n", " None\n", " None\n", @@ -4058,7 +4122,7 @@ " \n", " 138\n", " produces\n", - " SEMMEDDB:produces\n", + " SEMMEDDB:PRODUCES\n", " produces\n", " None\n", " None\n", @@ -4071,7 +4135,7 @@ " \n", " 60\n", " stimulates\n", - " SEMMEDDB:stimulates\n", + " SEMMEDDB:STIMULATES\n", " affects\n", " causes\n", " activity_or_abundance\n", @@ -4084,7 +4148,7 @@ " \n", " 148\n", " treats\n", - " SEMMEDDB:treats\n", + " SEMMEDDB:TREATS\n", " treats\n", " None\n", " None\n", @@ -4097,7 +4161,7 @@ " \n", " 149\n", " uses\n", - " SEMMEDDB:uses\n", + " SEMMEDDB:USES\n", " has_input\n", " None\n", " None\n", @@ -4113,32 +4177,32 @@ ], "text/plain": [ " SemmedPred Semmed_in_BM BMPred \\\n", - "54 administered_to SEMMEDDB:administered_to affects \n", - "145 affects SEMMEDDB:affects affects \n", - "160 associated_with SEMMEDDB:associated_with related_to \n", - "55 augments SEMMEDDB:augments affects \n", - "141 causes SEMMEDDB:causes causes \n", - "56 coexists_with SEMMEDDB:coexists_with coexists_with \n", - "143 complicates SEMMEDDB:complicates exacerbates \n", - "57 converts_to SEMMEDDB:converts_to derives_into \n", - "157 diagnoses SEMMEDDB:diagnoses diagnoses \n", - "140 disrupts SEMMEDDB:disrupts disrupts \n", - "58 inhibits SEMMEDDB:inhibits affects \n", - "136 interacts_with SEMMEDDB:interacts_with interacts_with \n", - "172 isa SEMMEDDB:isa subclass_of \n", - "129 location_of SEMMEDDB:location_of location_of \n", - "144 manifestation_of SEMMEDDB:manifestation_of manifestation_of \n", - "156 measures SEMMEDDB:measures quantifier_qualifier \n", - "146 occurs_in SEMMEDDB:occurs_in occurs_in \n", - "127 part_of SEMMEDDB:part_of part_of \n", - "132 precedes SEMMEDDB:precedes precedes \n", - "59 predisposes SEMMEDDB:predisposes predisposes \n", - "142 prevents SEMMEDDB:prevents prevents \n", - "134 process_of SEMMEDDB:process_of occurs_in \n", - "138 produces SEMMEDDB:produces produces \n", - "60 stimulates SEMMEDDB:stimulates affects \n", - "148 treats SEMMEDDB:treats treats \n", - "149 uses SEMMEDDB:uses has_input \n", + "54 administered_to SEMMEDDB:ADMINISTERED_TO affects \n", + "145 affects SEMMEDDB:AFFECTS affects \n", + "160 associated_with SEMMEDDB:ASSOCIATED_WITH related_to \n", + "55 augments SEMMEDDB:AUGMENTS affects \n", + "141 causes SEMMEDDB:CAUSES causes \n", + "56 coexists_with SEMMEDDB:COEXISTS_WITH coexists_with \n", + "143 complicates SEMMEDDB:COMPLICATES exacerbates \n", + "57 converts_to SEMMEDDB:CONVERTS_TO derives_into \n", + "157 diagnoses SEMMEDDB:DIAGNOSES diagnoses \n", + "140 disrupts SEMMEDDB:DISRUPTS disrupts \n", + "58 inhibits SEMMEDDB:INHIBITS affects \n", + "136 interacts_with SEMMEDDB:INTERACTS_WITH interacts_with \n", + "172 isa SEMMEDDB:ISA subclass_of \n", + "129 location_of SEMMEDDB:LOCATION_OF location_of \n", + "144 manifestation_of SEMMEDDB:MANIFESTATION_OF manifestation_of \n", + "156 measures SEMMEDDB:MEASURES quantifier_qualifier \n", + "146 occurs_in SEMMEDDB:OCCURS_IN occurs_in \n", + "127 part_of SEMMEDDB:PART_OF part_of \n", + "132 precedes SEMMEDDB:PRECEDES precedes \n", + "59 predisposes SEMMEDDB:PREDISPOSES predisposes \n", + "142 prevents SEMMEDDB:PREVENTS prevents \n", + "134 process_of SEMMEDDB:PROCESS_OF occurs_in \n", + "138 produces SEMMEDDB:PRODUCES produces \n", + "60 stimulates SEMMEDDB:STIMULATES affects \n", + "148 treats SEMMEDDB:TREATS treats \n", + "149 uses SEMMEDDB:USES has_input \n", "\n", " BMQualPred BMObjAsp BMObjDirect BMPred_Inv \\\n", "54 None None None affected_by \n", @@ -4153,7 +4217,7 @@ "140 None None None disrupted_by \n", "58 causes activity_or_abundance decreased affected_by \n", "136 None None None interacts_with \n", - "172 None None None superclass_of \n", + "172 None None None subclass_of \n", "129 None None None located_in \n", "144 None None None has_manifestation \n", "156 None None None quantifier_qualifier \n", @@ -4197,7 +4261,7 @@ "149 None None None " ] }, - "execution_count": 51, + "execution_count": 69, "metadata": {}, "output_type": "execute_result" } @@ -4216,12 +4280,12 @@ }, { "cell_type": "code", - "execution_count": 52, + "execution_count": 70, "id": "50027e5e", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:13.409862Z", - "start_time": "2022-11-10T23:37:13.404651Z" + "end_time": "2022-12-08T22:50:49.627946Z", + "start_time": "2022-12-08T22:50:49.622533Z" } }, "outputs": [], @@ -4238,12 +4302,12 @@ }, { "cell_type": "code", - "execution_count": 53, + "execution_count": 71, "id": "946dd392", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:13.422172Z", - "start_time": "2022-11-10T23:37:13.411424Z" + "end_time": "2022-12-08T22:50:50.571206Z", + "start_time": "2022-12-08T22:50:50.559009Z" } }, "outputs": [ @@ -4431,7 +4495,7 @@ " None\n", " None\n", " None\n", - " superclass_of\n", + " subclass_of\n", " None\n", " None\n", " None\n", @@ -4638,7 +4702,7 @@ "140 None disrupted_by None \n", "58 decreased affected_by caused_by \n", "136 None interacts_with None \n", - "172 None superclass_of None \n", + "172 None subclass_of None \n", "129 None located_in None \n", "144 None has_manifestation None \n", "156 None quantifier_qualifier None \n", @@ -4682,7 +4746,7 @@ "149 None None " ] }, - "execution_count": 53, + "execution_count": 71, "metadata": {}, "output_type": "execute_result" } @@ -4708,12 +4772,12 @@ }, { "cell_type": "code", - "execution_count": 54, + "execution_count": 72, "id": "9079161f", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:13.428747Z", - "start_time": "2022-11-10T23:37:13.423619Z" + "end_time": "2022-12-08T22:50:59.589668Z", + "start_time": "2022-12-08T22:50:59.583818Z" } }, "outputs": [ @@ -4730,7 +4794,7 @@ "{'METHOD_OF'}" ] }, - "execution_count": 54, + "execution_count": 72, "metadata": {}, "output_type": "execute_result" }, @@ -4747,7 +4811,7 @@ "{'ISA'}" ] }, - "execution_count": 54, + "execution_count": 72, "metadata": {}, "output_type": "execute_result" } @@ -4762,12 +4826,12 @@ }, { "cell_type": "code", - "execution_count": 55, + "execution_count": 73, "id": "5e25a929", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:13.433574Z", - "start_time": "2022-11-10T23:37:13.430697Z" + "end_time": "2022-12-08T22:51:01.902167Z", + "start_time": "2022-12-08T22:51:01.898216Z" } }, "outputs": [ @@ -4777,7 +4841,7 @@ "{'ISA', 'MEASURES', 'METHOD_OF', 'USES'}" ] }, - "execution_count": 55, + "execution_count": 73, "metadata": {}, "output_type": "execute_result" } @@ -4789,12 +4853,12 @@ }, { "cell_type": "code", - "execution_count": 56, + "execution_count": 74, "id": "5a46158c", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:13.447071Z", - "start_time": "2022-11-10T23:37:13.435085Z" + "end_time": "2022-12-08T22:51:02.585891Z", + "start_time": "2022-12-08T22:51:02.572206Z" } }, "outputs": [ @@ -5188,7 +5252,7 @@ "148 None None " ] }, - "execution_count": 56, + "execution_count": 74, "metadata": {}, "output_type": "execute_result" }, @@ -5198,7 +5262,7 @@ "(23, 9)" ] }, - "execution_count": 56, + "execution_count": 74, "metadata": {}, "output_type": "execute_result" } @@ -5212,12 +5276,12 @@ }, { "cell_type": "code", - "execution_count": 57, + "execution_count": 75, "id": "64cacd52", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:15.409550Z", - "start_time": "2022-11-10T23:37:13.448622Z" + "end_time": "2022-12-08T22:51:20.171286Z", + "start_time": "2022-12-08T22:51:17.663835Z" } }, "outputs": [], @@ -5228,12 +5292,12 @@ }, { "cell_type": "code", - "execution_count": 58, + "execution_count": 76, "id": "530e3631", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:18.841172Z", - "start_time": "2022-11-10T23:37:15.411528Z" + "end_time": "2022-12-08T22:51:25.212937Z", + "start_time": "2022-12-08T22:51:21.616206Z" } }, "outputs": [ @@ -5243,7 +5307,7 @@ "41" ] }, - "execution_count": 58, + "execution_count": 76, "metadata": {}, "output_type": "execute_result" }, @@ -5253,7 +5317,7 @@ "41" ] }, - "execution_count": 58, + "execution_count": 76, "metadata": {}, "output_type": "execute_result" }, @@ -5263,7 +5327,7 @@ "23" ] }, - "execution_count": 58, + "execution_count": 76, "metadata": {}, "output_type": "execute_result" } @@ -5289,12 +5353,12 @@ }, { "cell_type": "code", - "execution_count": 59, + "execution_count": 77, "id": "863543b6", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:24.014154Z", - "start_time": "2022-11-10T23:37:18.842753Z" + "end_time": "2022-12-08T22:51:34.038483Z", + "start_time": "2022-12-08T22:51:28.506912Z" } }, "outputs": [ @@ -5304,7 +5368,7 @@ "(5936, 4)" ] }, - "execution_count": 59, + "execution_count": 77, "metadata": {}, "output_type": "execute_result" }, @@ -5424,7 +5488,7 @@ "9 bpoc PART_OF bpoc 542301" ] }, - "execution_count": 59, + "execution_count": 77, "metadata": {}, "output_type": "execute_result" } @@ -5455,12 +5519,12 @@ }, { "cell_type": "code", - "execution_count": 60, + "execution_count": 78, "id": "d874b8f2", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:24.029348Z", - "start_time": "2022-11-10T23:37:24.015876Z" + "end_time": "2022-12-08T22:51:37.343593Z", + "start_time": "2022-12-08T22:51:37.333936Z" } }, "outputs": [ @@ -5591,7 +5655,7 @@ "[3032 rows x 4 columns]" ] }, - "execution_count": 60, + "execution_count": 78, "metadata": {}, "output_type": "execute_result" } @@ -5602,12 +5666,12 @@ }, { "cell_type": "code", - "execution_count": 61, + "execution_count": 79, "id": "86920c33", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:24.041838Z", - "start_time": "2022-11-10T23:37:24.031068Z" + "end_time": "2022-12-08T22:51:39.304189Z", + "start_time": "2022-12-08T22:51:39.295052Z" } }, "outputs": [ @@ -5695,7 +5759,7 @@ "2383 aapp PRODUCES carb 289" ] }, - "execution_count": 61, + "execution_count": 79, "metadata": {}, "output_type": "execute_result" } @@ -5712,12 +5776,12 @@ }, { "cell_type": "code", - "execution_count": 62, + "execution_count": 80, "id": "2c859df9", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:24.053035Z", - "start_time": "2022-11-10T23:37:24.043217Z" + "end_time": "2022-12-08T22:51:41.393502Z", + "start_time": "2022-12-08T22:51:41.383836Z" } }, "outputs": [ @@ -5727,7 +5791,7 @@ "(3032, 3)" ] }, - "execution_count": 62, + "execution_count": 80, "metadata": {}, "output_type": "execute_result" }, @@ -5787,7 +5851,7 @@ "2 topp TREATS dsyn" ] }, - "execution_count": 62, + "execution_count": 80, "metadata": {}, "output_type": "execute_result" } @@ -5801,12 +5865,12 @@ }, { "cell_type": "code", - "execution_count": 63, + "execution_count": 81, "id": "b53030eb", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:24.061775Z", - "start_time": "2022-11-10T23:37:24.055642Z" + "end_time": "2022-12-08T22:51:42.780340Z", + "start_time": "2022-12-08T22:51:42.771773Z" } }, "outputs": [], @@ -5824,12 +5888,12 @@ }, { "cell_type": "code", - "execution_count": 64, + "execution_count": 82, "id": "9e435399", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:24.074112Z", - "start_time": "2022-11-10T23:37:24.063217Z" + "end_time": "2022-12-08T22:51:45.386763Z", + "start_time": "2022-12-08T22:51:45.377831Z" } }, "outputs": [], @@ -5847,12 +5911,12 @@ }, { "cell_type": "code", - "execution_count": 65, + "execution_count": 83, "id": "a0fe51f5", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:24.085920Z", - "start_time": "2022-11-10T23:37:24.075624Z" + "end_time": "2022-12-08T22:51:46.470204Z", + "start_time": "2022-12-08T22:51:46.460861Z" } }, "outputs": [ @@ -6008,7 +6072,7 @@ "[3032 rows x 5 columns]" ] }, - "execution_count": 65, + "execution_count": 83, "metadata": {}, "output_type": "execute_result" } @@ -6019,12 +6083,12 @@ }, { "cell_type": "code", - "execution_count": 66, + "execution_count": 84, "id": "3f42bd07", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:24.093457Z", - "start_time": "2022-11-10T23:37:24.087876Z" + "end_time": "2022-12-08T22:51:52.701528Z", + "start_time": "2022-12-08T22:51:52.695506Z" } }, "outputs": [], @@ -6038,12 +6102,12 @@ }, { "cell_type": "code", - "execution_count": 67, + "execution_count": 85, "id": "6c651d23", "metadata": { "ExecuteTime": { - "end_time": "2022-11-10T23:37:24.106148Z", - "start_time": "2022-11-10T23:37:24.095106Z" + "end_time": "2022-12-08T22:51:53.361249Z", + "start_time": "2022-12-08T22:51:53.349958Z" } }, "outputs": [ @@ -6153,7 +6217,7 @@ "2 None None None " ] }, - "execution_count": 67, + "execution_count": 85, "metadata": {}, "output_type": "execute_result" } @@ -6164,12 +6228,12 @@ }, { "cell_type": "code", - "execution_count": 68, + "execution_count": 86, "id": "cc7864f5", "metadata": { "ExecuteTime": { - "end_time": "2022-11-11T01:13:13.149481Z", - "start_time": "2022-11-11T01:13:13.126272Z" + "end_time": "2022-12-08T22:51:56.362074Z", + "start_time": "2022-12-08T22:51:56.338568Z" } }, "outputs": [ @@ -6220,7 +6284,7 @@ "Index: []" ] }, - "execution_count": 68, + "execution_count": 86, "metadata": {}, "output_type": "execute_result" }, @@ -6271,7 +6335,7 @@ "Index: []" ] }, - "execution_count": 68, + "execution_count": 86, "metadata": {}, "output_type": "execute_result" }, @@ -6322,7 +6386,7 @@ "Index: []" ] }, - "execution_count": 68, + "execution_count": 86, "metadata": {}, "output_type": "execute_result" }, @@ -6373,7 +6437,7 @@ "Index: []" ] }, - "execution_count": 68, + "execution_count": 86, "metadata": {}, "output_type": "execute_result" } @@ -6970,12 +7034,12 @@ }, { "cell_type": "code", - "execution_count": 69, + "execution_count": 87, "id": "1fcf921d", "metadata": { "ExecuteTime": { - "end_time": "2022-11-11T01:13:16.617428Z", - "start_time": "2022-11-11T01:13:16.614541Z" + "end_time": "2022-12-08T22:52:03.049392Z", + "start_time": "2022-12-08T22:52:03.045034Z" } }, "outputs": [], @@ -6986,12 +7050,12 @@ }, { "cell_type": "code", - "execution_count": 70, + "execution_count": 88, "id": "222c6bd1", "metadata": { "ExecuteTime": { - "end_time": "2022-11-11T01:13:17.144483Z", - "start_time": "2022-11-11T01:13:17.137103Z" + "end_time": "2022-12-08T22:52:05.822912Z", + "start_time": "2022-12-08T22:52:05.815420Z" } }, "outputs": [], @@ -7096,12 +7160,12 @@ }, { "cell_type": "code", - "execution_count": 71, + "execution_count": 89, "id": "912aa75d", "metadata": { "ExecuteTime": { - "end_time": "2022-11-11T01:13:17.754217Z", - "start_time": "2022-11-11T01:13:17.746766Z" + "end_time": "2022-12-08T22:52:07.391062Z", + "start_time": "2022-12-08T22:52:07.383708Z" } }, "outputs": [], @@ -7210,12 +7274,12 @@ }, { "cell_type": "code", - "execution_count": 72, + "execution_count": 90, "id": "db9f9f81", "metadata": { "ExecuteTime": { - "end_time": "2022-11-11T01:13:18.376892Z", - "start_time": "2022-11-11T01:13:18.370851Z" + "end_time": "2022-12-08T22:52:08.278624Z", + "start_time": "2022-12-08T22:52:08.272488Z" } }, "outputs": [], @@ -7273,12 +7337,12 @@ }, { "cell_type": "code", - "execution_count": 73, + "execution_count": 91, "id": "3856781d", "metadata": { "ExecuteTime": { - "end_time": "2022-11-11T01:13:22.397156Z", - "start_time": "2022-11-11T01:13:22.374512Z" + "end_time": "2022-12-08T22:52:11.986869Z", + "start_time": "2022-12-08T22:52:11.963446Z" } }, "outputs": [], @@ -7288,12 +7352,12 @@ }, { "cell_type": "code", - "execution_count": 74, + "execution_count": 92, "id": "fdcd4202", "metadata": { "ExecuteTime": { - "end_time": "2022-11-11T01:13:23.135725Z", - "start_time": "2022-11-11T01:13:23.131371Z" + "end_time": "2022-12-08T22:52:13.091295Z", + "start_time": "2022-12-08T22:52:13.087714Z" } }, "outputs": [ @@ -7303,7 +7367,7 @@ "2497" ] }, - "execution_count": 74, + "execution_count": 92, "metadata": {}, "output_type": "execute_result" } @@ -7314,12 +7378,12 @@ }, { "cell_type": "code", - "execution_count": 75, + "execution_count": 93, "id": "5495d772", "metadata": { "ExecuteTime": { - "end_time": "2022-11-11T01:13:24.603378Z", - "start_time": "2022-11-11T01:13:24.598560Z" + "end_time": "2022-12-08T22:52:15.657999Z", + "start_time": "2022-12-08T22:52:15.653465Z" } }, "outputs": [ @@ -7370,12 +7434,12 @@ }, { "cell_type": "code", - "execution_count": 76, + "execution_count": 94, "id": "239dce9d", "metadata": { "ExecuteTime": { - "end_time": "2022-11-11T01:13:31.985880Z", - "start_time": "2022-11-11T01:13:27.914718Z" + "end_time": "2022-12-08T22:52:41.563409Z", + "start_time": "2022-12-08T22:52:37.405673Z" } }, "outputs": [], @@ -7398,12 +7462,12 @@ }, { "cell_type": "code", - "execution_count": 77, + "execution_count": 95, "id": "27403608", "metadata": { "ExecuteTime": { - "end_time": "2022-11-11T01:14:06.837215Z", - "start_time": "2022-11-11T01:14:06.834248Z" + "end_time": "2022-12-08T22:52:45.928167Z", + "start_time": "2022-12-08T22:52:45.924961Z" } }, "outputs": [], @@ -7418,12 +7482,12 @@ }, { "cell_type": "code", - "execution_count": 78, + "execution_count": 96, "id": "4bec97ed", "metadata": { "ExecuteTime": { - "end_time": "2022-11-11T01:14:07.624866Z", - "start_time": "2022-11-11T01:14:07.621897Z" + "end_time": "2022-12-08T22:52:47.614059Z", + "start_time": "2022-12-08T22:52:47.611199Z" } }, "outputs": [], @@ -7433,12 +7497,12 @@ }, { "cell_type": "code", - "execution_count": 79, + "execution_count": 97, "id": "e64c34db", "metadata": { "ExecuteTime": { - "end_time": "2022-11-11T01:14:08.779358Z", - "start_time": "2022-11-11T01:14:08.426386Z" + "end_time": "2022-12-08T22:52:48.628066Z", + "start_time": "2022-12-08T22:52:48.289221Z" } }, "outputs": [], From fb46c57b71f22baa3c26781ab17a5bfdc6bbc6f3 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Tue, 13 Dec 2022 17:12:34 -0800 Subject: [PATCH 37/46] many apis: update biolink version to 3.1.1 --- DISEASES/smartapi.yaml | 2 +- EBIgene2phenotype/smartapi.yaml | 2 +- MGIgene2phenotype/smartapi.yaml | 2 +- bindingdb/smartapi.yaml | 2 +- biolink/openapi.yml | 2 +- bioplanet/bioplanet-pathway-disease.yaml | 2 +- bioplanet/bioplanet-pathway-gene.yaml | 2 +- biothings_explorer/service-provider-trapi.yaml | 2 +- biothings_explorer/smartapi.yaml | 2 +- dgidb/openapi.yml | 2 +- ebi_proteins/openapi.yml | 2 +- go_bp/smartapi.yaml | 2 +- go_cc/smartapi.yaml | 2 +- go_mf/smartapi.yaml | 2 +- hpo/smartapi.yaml | 2 +- idisk/smartapi.yaml | 2 +- litvar/smartapi.yaml | 2 +- mychem.info/openapi_full.yml | 2 +- mydisease.info/smartapi.yaml | 2 +- mygene.info/openapi_full.yml | 2 +- myvariant.info/openapi_full.yml | 2 +- ols/smartapi.yaml | 2 +- pfocr/smartapi.yaml | 2 +- quickgo/smartapi.yaml | 2 +- rhea/smartapi.yaml | 2 +- semmeddb/smartapi.yaml | 2 +- semmeddb/version_without_operations.yaml | 2 +- uberon/smartapi.yaml | 2 +- 28 files changed, 28 insertions(+), 28 deletions(-) diff --git a/DISEASES/smartapi.yaml b/DISEASES/smartapi.yaml index 18742552..182df30d 100644 --- a/DISEASES/smartapi.yaml +++ b/DISEASES/smartapi.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/DISEASES diff --git a/EBIgene2phenotype/smartapi.yaml b/EBIgene2phenotype/smartapi.yaml index 1efe6ea0..ea28fe06 100644 --- a/EBIgene2phenotype/smartapi.yaml +++ b/EBIgene2phenotype/smartapi.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/ebigene2phenotype diff --git a/MGIgene2phenotype/smartapi.yaml b/MGIgene2phenotype/smartapi.yaml index 9213d634..d40a62f8 100644 --- a/MGIgene2phenotype/smartapi.yaml +++ b/MGIgene2phenotype/smartapi.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/mgigene2phenotype diff --git a/bindingdb/smartapi.yaml b/bindingdb/smartapi.yaml index e01c317c..4a75b3a0 100644 --- a/bindingdb/smartapi.yaml +++ b/bindingdb/smartapi.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/bindingdb diff --git a/biolink/openapi.yml b/biolink/openapi.yml index 7a4776a7..6209b6b8 100644 --- a/biolink/openapi.yml +++ b/biolink/openapi.yml @@ -15,7 +15,7 @@ info: team: - "Service Provider" - "Standards Reference Implementation Team" - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - description: Production server url: https://api.monarchinitiative.org/api diff --git a/bioplanet/bioplanet-pathway-disease.yaml b/bioplanet/bioplanet-pathway-disease.yaml index c4f5d5c6..ede630c5 100644 --- a/bioplanet/bioplanet-pathway-disease.yaml +++ b/bioplanet/bioplanet-pathway-disease.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/bioplanet_pathway_disease diff --git a/bioplanet/bioplanet-pathway-gene.yaml b/bioplanet/bioplanet-pathway-gene.yaml index 489e08d3..41039944 100644 --- a/bioplanet/bioplanet-pathway-gene.yaml +++ b/bioplanet/bioplanet-pathway-gene.yaml @@ -17,7 +17,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/bioplanet_pathway_gene diff --git a/biothings_explorer/service-provider-trapi.yaml b/biothings_explorer/service-provider-trapi.yaml index 02e455d4..b960efda 100644 --- a/biothings_explorer/service-provider-trapi.yaml +++ b/biothings_explorer/service-provider-trapi.yaml @@ -36,7 +36,7 @@ info: - "https://raw.githubusercontent.com/NCATS-Tangerine/translator-api-registry/master/biothings_explorer/sri-test-text-mining.json" x-translator: infores: "infores:service-provider-trapi" - biolink-version: "3.0.3" + biolink-version: "3.1.1" component: KP team: - Service Provider diff --git a/biothings_explorer/smartapi.yaml b/biothings_explorer/smartapi.yaml index 7276d044..71ad9f49 100644 --- a/biothings_explorer/smartapi.yaml +++ b/biothings_explorer/smartapi.yaml @@ -25,7 +25,7 @@ info: url: "https://raw.githubusercontent.com/NCATS-Tangerine/translator-api-registry/5b19e854524c48a39125d545bec13f637661a09f/biothings_explorer/sri-test-bte-ara.json" x-translator: infores: "infores:biothings-explorer" - biolink-version: "3.0.3" + biolink-version: "3.1.1" component: ARA team: - Exploring Agent diff --git a/dgidb/openapi.yml b/dgidb/openapi.yml index aadae249..6dce54a3 100644 --- a/dgidb/openapi.yml +++ b/dgidb/openapi.yml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/dgidb diff --git a/ebi_proteins/openapi.yml b/ebi_proteins/openapi.yml index d3a4729c..613e069a 100644 --- a/ebi_proteins/openapi.yml +++ b/ebi_proteins/openapi.yml @@ -18,7 +18,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - url: 'https://www.ebi.ac.uk/proteins/api' x-maturity: production diff --git a/go_bp/smartapi.yaml b/go_bp/smartapi.yaml index 803b50eb..755c8567 100644 --- a/go_bp/smartapi.yaml +++ b/go_bp/smartapi.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/go_bp diff --git a/go_cc/smartapi.yaml b/go_cc/smartapi.yaml index 0f97a1fc..628fbcba 100644 --- a/go_cc/smartapi.yaml +++ b/go_cc/smartapi.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/go_cc diff --git a/go_mf/smartapi.yaml b/go_mf/smartapi.yaml index dd7320ab..ede1fd49 100644 --- a/go_mf/smartapi.yaml +++ b/go_mf/smartapi.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/go_mf diff --git a/hpo/smartapi.yaml b/hpo/smartapi.yaml index d93ca90f..57edaab8 100644 --- a/hpo/smartapi.yaml +++ b/hpo/smartapi.yaml @@ -15,7 +15,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/hpo diff --git a/idisk/smartapi.yaml b/idisk/smartapi.yaml index 8ca39f48..6d973ed2 100644 --- a/idisk/smartapi.yaml +++ b/idisk/smartapi.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/idisk diff --git a/litvar/smartapi.yaml b/litvar/smartapi.yaml index e45b9b8f..491a8a26 100644 --- a/litvar/smartapi.yaml +++ b/litvar/smartapi.yaml @@ -18,7 +18,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - url: https://www.ncbi.nlm.nih.gov/research/bionlp/litvar/api/v1 description: Production server diff --git a/mychem.info/openapi_full.yml b/mychem.info/openapi_full.yml index 8af166d0..0a7e703c 100644 --- a/mychem.info/openapi_full.yml +++ b/mychem.info/openapi_full.yml @@ -15,7 +15,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://mychem.info/v1 diff --git a/mydisease.info/smartapi.yaml b/mydisease.info/smartapi.yaml index 94837cc1..8534739e 100644 --- a/mydisease.info/smartapi.yaml +++ b/mydisease.info/smartapi.yaml @@ -15,7 +15,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://mydisease.info/v1 diff --git a/mygene.info/openapi_full.yml b/mygene.info/openapi_full.yml index e2eec35d..2dacf999 100644 --- a/mygene.info/openapi_full.yml +++ b/mygene.info/openapi_full.yml @@ -14,7 +14,7 @@ info: component: KP team: - "Service Provider" - biolink-version: "2.4.8" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://mygene.info/v3 diff --git a/myvariant.info/openapi_full.yml b/myvariant.info/openapi_full.yml index 7f220eb8..915954c1 100644 --- a/myvariant.info/openapi_full.yml +++ b/myvariant.info/openapi_full.yml @@ -15,7 +15,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://myvariant.info/v1 diff --git a/ols/smartapi.yaml b/ols/smartapi.yaml index f51391c0..2e99f7f7 100644 --- a/ols/smartapi.yaml +++ b/ols/smartapi.yaml @@ -19,7 +19,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - url: https://www.ebi.ac.uk/ols/api description: Production server diff --git a/pfocr/smartapi.yaml b/pfocr/smartapi.yaml index f42f034e..a8740d75 100644 --- a/pfocr/smartapi.yaml +++ b/pfocr/smartapi.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/pfocr diff --git a/quickgo/smartapi.yaml b/quickgo/smartapi.yaml index a7240429..84cfc2b2 100644 --- a/quickgo/smartapi.yaml +++ b/quickgo/smartapi.yaml @@ -19,7 +19,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - url: https://www.ebi.ac.uk/QuickGO/services description: Production server diff --git a/rhea/smartapi.yaml b/rhea/smartapi.yaml index 948b44c1..b9520313 100644 --- a/rhea/smartapi.yaml +++ b/rhea/smartapi.yaml @@ -15,7 +15,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/rhea diff --git a/semmeddb/smartapi.yaml b/semmeddb/smartapi.yaml index fe3fd4f8..7a9b48e1 100644 --- a/semmeddb/smartapi.yaml +++ b/semmeddb/smartapi.yaml @@ -17,7 +17,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - description: Production server url: https://biothings.ncats.io/semmeddb diff --git a/semmeddb/version_without_operations.yaml b/semmeddb/version_without_operations.yaml index 05768b52..b586a89f 100644 --- a/semmeddb/version_without_operations.yaml +++ b/semmeddb/version_without_operations.yaml @@ -17,7 +17,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - description: Production server url: https://biothings.ncats.io/semmeddb diff --git a/uberon/smartapi.yaml b/uberon/smartapi.yaml index e0a70d58..54f13279 100644 --- a/uberon/smartapi.yaml +++ b/uberon/smartapi.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "3.0.3" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/uberon From e5797faf57770d2b5e9c4d30e4e9491ae2100106 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Wed, 25 Jan 2023 13:06:55 -0800 Subject: [PATCH 38/46] change subject/object to subject_id/object_id to match format here https://github.com/TranslatorSRI/SRI_testing/blob/main/tests/onehop/README.md\#biolink-3-revisions --- biothings_explorer/qualifier-sri-test-service.json | 12 ++++++------ 1 file changed, 6 insertions(+), 6 deletions(-) diff --git a/biothings_explorer/qualifier-sri-test-service.json b/biothings_explorer/qualifier-sri-test-service.json index 25b0694e..9d6dba30 100644 --- a/biothings_explorer/qualifier-sri-test-service.json +++ b/biothings_explorer/qualifier-sri-test-service.json @@ -5,11 +5,11 @@ "underlying_api_infores": "biothings-dgidb", "underlying_source_infores": "dgidb", "subject_category": "biolink:SmallMolecule", - "subject": "CHEMBL.COMPOUND:CHEMBL266510", + "subject_id": "CHEMBL.COMPOUND:CHEMBL266510", "subject_name": "FLINDOKALNER", "predicate": "biolink:affects", "object_category": "biolink:Gene", - "object": "NCBIGene:9132", + "object_id": "NCBIGene:9132", "object_name": "KCNQ4", "qualifiers": [ { @@ -34,11 +34,11 @@ "underlying_api_infores": "biothings-go-bp", "underlying_source_infores": "go", "subject_category": "biolink:BiologicalProcess", - "subject": "GO:0090272", + "subject_id": "GO:0090272", "subject_name": "negative regulation of fibroblast growth factor production", "predicate": "biolink:regulates", "object_category": "biolink:BiologicalProcess", - "object": "GO:0090269", + "object_id": "GO:0090269", "object_name": "fibroblast growth factor production", "qualifiers": [ { @@ -50,11 +50,11 @@ { "underlying_api_infores": "text-mining-provider-targeted", "subject_category": "biolink:SmallMolecule", - "subject": "CHEBI:3215", + "subject_id": "CHEBI:3215", "subject_name": "bupivacaine", "predicate": "biolink:affects", "object_category": "biolink:Gene", - "object": "UniProtKB:Q9P2L0", + "object_id": "UniProtKB:Q9P2L0", "object_name": "WDR35", "qualifiers": [ { From ed1b1f26a366ddc9c6b8e4324d181dab0bd81453 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Mon, 30 Jan 2023 16:13:18 -0800 Subject: [PATCH 39/46] multiple biothings apis: change api names add biothings and/or make second word of api names capitalized --- DISEASES/smartapi.yaml | 2 +- EBIgene2phenotype/smartapi.yaml | 2 +- MGIgene2phenotype/smartapi.yaml | 2 +- go_bp/smartapi.yaml | 2 +- go_cc/smartapi.yaml | 2 +- go_mf/smartapi.yaml | 2 +- hpo/smartapi.yaml | 2 +- idisk/smartapi.yaml | 2 +- pfocr/smartapi.yaml | 2 +- uberon/smartapi.yaml | 2 +- 10 files changed, 10 insertions(+), 10 deletions(-) diff --git a/DISEASES/smartapi.yaml b/DISEASES/smartapi.yaml index 182df30d..7cacb16c 100644 --- a/DISEASES/smartapi.yaml +++ b/DISEASES/smartapi.yaml @@ -9,7 +9,7 @@ info: Documentation of the BioThings API for [DISEASES](https://diseases.jensenlab.org/About) data. termsOfService: https://biothings.io/about - title: DISEASES API + title: BioThings DISEASES API version: '1.0' x-translator: infores: "infores:biothings-diseases" diff --git a/EBIgene2phenotype/smartapi.yaml b/EBIgene2phenotype/smartapi.yaml index ea28fe06..ddc18270 100644 --- a/EBIgene2phenotype/smartapi.yaml +++ b/EBIgene2phenotype/smartapi.yaml @@ -9,7 +9,7 @@ info: Documentation of the BioThings API for [EBIgene2phenotype](https://www.ebi.ac.uk/gene2phenotype/) data. termsOfService: https://biothings.io/about - title: EBIgene2phenotype API + title: BioThings EBIgene2phenotype API version: '2020-02-19' x-translator: infores: "infores:biothings-ebi-gene2phenotype" diff --git a/MGIgene2phenotype/smartapi.yaml b/MGIgene2phenotype/smartapi.yaml index d40a62f8..446a4ef7 100644 --- a/MGIgene2phenotype/smartapi.yaml +++ b/MGIgene2phenotype/smartapi.yaml @@ -9,7 +9,7 @@ info: Documentation of the BioThings API for [MGIgene2phenotype](http://www.informatics.jax.org/phenotypes.shtml) data. termsOfService: https://biothings.io/about - title: MGIgene2phenotype API + title: BioThings MGIgene2phenotype API version: '6.14' x-translator: infores: "infores:biothings-mgi-g2p" diff --git a/go_bp/smartapi.yaml b/go_bp/smartapi.yaml index 755c8567..33dfd99a 100644 --- a/go_bp/smartapi.yaml +++ b/go_bp/smartapi.yaml @@ -9,7 +9,7 @@ info: Documentation of the BioThings API for [Gene Ontology Biological Process sub-ontology](http://geneontology.org/docs/ontology-documentation/) data. termsOfService: https://biothings.io/about - title: Gene Ontology Biological Process API + title: BioThings GO Biological Process API version: '2020.07' x-translator: infores: "infores:biothings-go-bp" diff --git a/go_cc/smartapi.yaml b/go_cc/smartapi.yaml index 628fbcba..9eb6e9bd 100644 --- a/go_cc/smartapi.yaml +++ b/go_cc/smartapi.yaml @@ -9,7 +9,7 @@ info: Documentation of the BioThings API for [Gene Ontology Cellular Component sub-ontology](http://geneontology.org/docs/ontology-documentation/) data. termsOfService: https://biothings.io/about - title: Gene Ontology Cellular Component API + title: BioThings GO Cellular Component API version: '2020.07' x-translator: infores: "infores:biothings-go-cc" diff --git a/go_mf/smartapi.yaml b/go_mf/smartapi.yaml index ede1fd49..c2548d5a 100644 --- a/go_mf/smartapi.yaml +++ b/go_mf/smartapi.yaml @@ -9,7 +9,7 @@ info: Documentation of the BioThings API for [Gene Ontology Molecular Function sub-ontology](http://geneontology.org/docs/ontology-documentation/) data. termsOfService: https://biothings.io/about - title: Gene Ontology Molecular Function API + title: BioThings GO Molecular Function API version: '2020.07' x-translator: infores: "infores:biothings-go-mf" diff --git a/hpo/smartapi.yaml b/hpo/smartapi.yaml index 57edaab8..a7164062 100644 --- a/hpo/smartapi.yaml +++ b/hpo/smartapi.yaml @@ -8,7 +8,7 @@ info: description: >- Documentation of the BioThings API for [Human Phenotype Ontology](https://hpo.jax.org/app/) data. termsOfService: https://biothings.io/about - title: Human Phenotype Ontology API + title: BioThings HPO API version: '2020.6' x-translator: infores: "infores:biothings-hpo" diff --git a/idisk/smartapi.yaml b/idisk/smartapi.yaml index 6d973ed2..edb840a2 100644 --- a/idisk/smartapi.yaml +++ b/idisk/smartapi.yaml @@ -9,7 +9,7 @@ info: Documentation of the BioThings API for [iDISK](https://pubmed.ncbi.nlm.nih.gov/32068839/) (integrated Dietary Supplement Knowledge Base) data. termsOfService: https://biothings.io/about - title: BioThings iDISK API + title: BioThings IDISK API version: '2020-02-14' x-translator: infores: "infores:biothings-idisk" diff --git a/pfocr/smartapi.yaml b/pfocr/smartapi.yaml index a8740d75..e00c02f2 100644 --- a/pfocr/smartapi.yaml +++ b/pfocr/smartapi.yaml @@ -9,7 +9,7 @@ info: Documentation of the BioThings API for [Pathway Figure OCR (pfocr)](https://pfocr.wikipathways.org/) data. termsOfService: https://biothings.io/about - title: BioThings pfocr API + title: BioThings PFOCR API version: '2022-04-05' x-translator: infores: "infores:biothings-pfocr" diff --git a/uberon/smartapi.yaml b/uberon/smartapi.yaml index 54f13279..a1d63c8c 100644 --- a/uberon/smartapi.yaml +++ b/uberon/smartapi.yaml @@ -9,7 +9,7 @@ info: Documentation of the BioThings API for [UBERON ontology](https://obophenotype.github.io/uberon/) data. termsOfService: https://biothings.io/about - title: UBERON Ontology API + title: BioThings UBERON API version: '2019.11' x-translator: infores: "infores:biothings-uberon-ontology" From 5d4391abd6947f5ed27ba95e4879f0ee622b3f91 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Sun, 5 Feb 2023 23:24:32 -0800 Subject: [PATCH 40/46] mychem: update drugcentral.bioactivity operations annotation covers less chemical records in chem -> gene direction (forward/indexed), but uses more specific predicate-qualifier modeling annotation still covers all chemical records in gene -> chem direction (reverse), but predicate has been changed to more-general interacts_with --- mychem.info/openapi_full.yml | 567 +++++++++++++++++++++++++++++++---- 1 file changed, 514 insertions(+), 53 deletions(-) diff --git a/mychem.info/openapi_full.yml b/mychem.info/openapi_full.yml index 0a7e703c..a101424b 100644 --- a/mychem.info/openapi_full.yml +++ b/mychem.info/openapi_full.yml @@ -332,7 +332,18 @@ paths: - "$ref": "#/components/x-bte-kgs-operations/chebiToRhea-rev" - "$ref": "#/components/x-bte-kgs-operations/treatsChembl" - "$ref": "#/components/x-bte-kgs-operations/treatsChembl-rev" - - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity" + - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-activator" + - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-agonist" + - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-antagonist" + - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-antibody" + - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-antisense-inhibitor" + - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-binding-agent" + - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-blocker" + - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-gating-inhibitor" + - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-inhibitor" + - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-opener" + - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-positive-allosteric-modulator" + - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-positive-modulator" - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-rev" - "$ref": "#/components/x-bte-kgs-operations/drugcentral-contraindication" - "$ref": "#/components/x-bte-kgs-operations/drugcentral-contraindication-rev" @@ -627,9 +638,11 @@ components: drugcentral-bioactivity: UniProtKB: drugcentral.bioactivity.uniprot.uniprot_id ## no prefix ## edge attributes - drugcentral_bioactivity_action_source: drugcentral.bioactivity.act_source - drugcentral_bioactivity_action_type: drugcentral.bioactivity.action_type + drugcentral_bioactivity: drugcentral.bioactivity.action_type + drugcentral_bioactivity_source: drugcentral.bioactivity.act_source in_taxon: drugcentral.bioactivity.organism + drugcentral-umls: + UMLS: drugcentral.xrefs.umlscui ## no prefix drugcentral-chembl: "CHEMBL.COMPOUND": drugcentral.xrefs.chembl_id ## no prefix drugcentral-contraindication: @@ -682,15 +695,13 @@ components: parameters: fields: aeolus.indications.meddra_code ## no prefix size: 1000 ## note size limit; added just in case - predicate: treats ## current biolink predicate + predicate: treats source: "infores:aeolus" response_mapping: "$ref": "#/components/x-bte-response-mapping/aeolusIndication-meddra" # testExamples: # - qInput: "UNII:90347YTW5F" ## alfuzosin # oneOutput: "MEDDRA:10004446" ## Benign prostatic hyperplasia - ## once MyChem comes out (indexes the field) - ## un-comment the operation in x-bte-kgs-operation list under post and try this out aeolusTreats-rev: - supportBatch: true useTemplating: true @@ -707,7 +718,7 @@ components: parameters: fields: aeolus.unii ## no prefix size: 1000 ## note size limit - predicate: treated_by ## current biolink predicate + predicate: treated_by source: "infores:aeolus" response_mapping: "$ref": "#/components/x-bte-response-mapping/aeolus-unii" @@ -719,11 +730,11 @@ components: ## see https://docs.mychem.info/en/latest/doc/data_source.html ## - not including chebi.xrefs.uniprot because: ## * too many genes linked to a chemical - ## * genes are from all species (not clear how to restrict to human) + ## * genes are from all species (no way to filter to human/non-human) ## - not including chebi.xrefs.brenda (EC numbers): not clear what this means, ## or how accurately it's been ingested into chebi... ## - not including chebi.xrefs.intenz (EC numbers): not in curie or ID form - ## (example: EC 1.5.1.28) + ## (example: "EC 1.5.1.28") chebiToReactome: ## there are 1941 records with chebi.xrefs.reactome - supportBatch: true @@ -742,7 +753,7 @@ components: parameters: fields: chebi.xrefs.reactome ## no prefix size: 1000 ## note size limit; added just in case - predicate: participates_in ## current biolink predicate + predicate: participates_in source: "infores:chebi" response_mapping: "$ref": "#/components/x-bte-response-mapping/chebiXrefs-reactome" @@ -765,7 +776,7 @@ components: parameters: fields: chebi.id size: 1000 ## note size limit - predicate: has_participant ## current biolink predicate + predicate: has_participant source: "infores:chebi" response_mapping: "$ref": "#/components/x-bte-response-mapping/chebi" @@ -789,7 +800,7 @@ components: parameters: fields: chebi.xrefs.rhea ## HAS PREFIX size: 1000 ## note size limit; added just in case - predicate: participates_in ## current biolink predicate + predicate: participates_in source: "infores:chebi" response_mapping: "$ref": "#/components/x-bte-response-mapping/chebiXrefs-rhea" @@ -812,7 +823,7 @@ components: parameters: fields: chebi.id ## HAS PREFIX size: 1000 ## note size limit - predicate: has_participant ## current biolink predicate + predicate: has_participant source: "infores:chebi" response_mapping: "$ref": "#/components/x-bte-response-mapping/chebi" @@ -820,9 +831,10 @@ components: # - qInput: "RHEA:23312" ## 2 sucrose = 1(F)-beta-D-fructosylsucrose + D-glucose # oneOutput: "CHEBI:16885" ## 1-kestose / 1(F)-beta-D-fructosylsucrose ## chembl - ## - not including drug_mechanisms because - ## * it uses CHEMBL.TARGET IDs and SRI ID resolver doesn't support that yet... - ## * it also will include non-human protein targets (like tuberculosis protein...) + ## - not including drug_mechanisms because it uses CHEMBL.TARGET IDs and SRI ID resolver doesn't support that yet... + ## can filter for human vs non-human targets and by target-type + ## other target_organism values: Bacteria, Human respiratory syncytial virus, Fungi, Human herpesvirus 1, Hepatitis C virus, + ## Human immunodeficiency virus 1, Varicella-zoster virus (strain Oka vaccine) (HHV-3) (Human herpesvirus 3) treatsChembl: ## all drug_indication records have a mesh ID for the indication... - supportBatch: true @@ -847,7 +859,6 @@ components: chembl.drug_indications.indication_refs.type, chembl.drug_indications.first_approval size: 1000 ## note size limit; added just in case - ## child of treats, seems to better fit the "indication" idea predicate: treats source: "infores:chembl" response_mapping: @@ -879,56 +890,503 @@ components: # - qInput: "MESH:D014376" ## Tuberculosis # oneOutput: "CHEMBL.COMPOUND:CHEMBL1441" ## ETHIONAMIDE ## DrugCentral source - ## - not including: - ## - drugcentral.approval (node properties?) - ## - drugcentral.drug_dosage (node properties?) - ## - drugcentral.drug_use.diagnosis (only has 1 matching record...) - ## - drugcentral.drug_use.reduce_risk (only has 1 matching record...) - ## - drugcentral.drug_use.symptomatic_treatment (only has 2 matching records...) - drugcentral-bioactivity: - ## BIG NOTE: this endpoint actually gives genes from multiple organisms. - ## for example, see: https://mychem.info/v1/chem/ONNOFKFOZAJDHT-UHFFFAOYSA-N : it says rat... - ## possible values: "Homo sapiens", "Rattus norvegicus", "Bos taurus", "Mus musculus"... - ## I'm not clear on how to get only human genes to return... + ## Not annotating: + ## - drugcentral.approval (node properties?) + ## - drugcentral.drug_dosage (node properties?) + ## - drugcentral.drug_use.diagnosis (only has 1 matching record...) + ## - drugcentral.drug_use.reduce_risk (only has 1 matching record...) + ## - drugcentral.drug_use.symptomatic_treatment (only has 2 matching records...) + ################################################################################################################################ + ## DrugCentral Bioactivity: chemical - gene/protein relationships + ## - 2772 chemicals/records have the drugcentral.bioactivity field https://mychem.info/v1/query?q=_exists_:drugcentral.bioactivity + ## - using drugcentral.xrefs.umlscui for the chem ID, since 2769/2772 chem have this field (vs 2763 that have drugcentral.xrefs.chembl_id) + ## https://mychem.info/v1/query?q=_exists_:drugcentral.bioactivity%20AND%20_exists_:drugcentral.xrefs.umlscui + ## - using drugcentral.bioactivity.uniprot.uniprot_id for the gene ID. 2650/2769 chem have this field + ## https://mychem.info/v1/query?q=_exists_:drugcentral.bioactivity%20AND%20_exists_:drugcentral.xrefs.umlscui%20AND%20_exists_:drugcentral.bioactivity.uniprot.uniprot_id + ## - The 119 chem that don't have this uniprot ID field are also missing the bioactivity.organism field + ## - bioactivities with some action_type values are also missing the uniprot fields: + ## HYDROLYTIC ENZYME, OTHER, SEQUESTERING AGENT, CHELATING AGENT, MEMBRANE PERMEABILIZER, DNA STRAND BREAK, ALKYLATING AGENT, CROSS-LINKING AGENT, MINIMUM INHIBITORY CONCENTRATION + ## - for chem -> gene operations (not the "reverse" direction aka not "rev"): + ## we can write more specific operations by setting the drugcentral.bioactivity.action_type value + ## - MISSING operation to access 614/2650 chem that don't have this action_type field + ## I can't figure out how to write a POST/batch-query with a "NOT _exists_:drugcentral.bioactivity.action_type" statement + ## - MISSING operations for the following action_type values because of <9 chemicals/records + ## * INVERSE AGONIST (8) + ## * NEGATIVE ALLOSTERIC MODULATOR (5) + ## * RELEASING AGENT (5) + ## * SUBSTRATE (5) + ## * PHARMACOLOGICAL CHAPERONE (3) + ## * NEGATIVE MODULATOR (1 chem related to 9 genes) + ## - for now, not including these fields in the response: + ## - about the gene: bioactivity.target_name, bioactivity.target_class, bioactivity.uniprot.gene_symbol, bioactivity.uniprot.swissprot_entry + ## - seem to be measurements of the activity: act_type, act_value. Seems like these would need to be combined, augmented with info like units to be fully "TRAPI-ified" + ## Appears to hold the info in the drugcentral webpages of chemicals -> bioactivity table -> "activity" columns + ## - seems to be about "mechanism of action": moa, moa_source. + ## drugcentral.bioactivity.moa always seems to be 1. This seems to mean this bioactivity is part of the drug's "mechanism of action" + ## Appears to be the check-mark in the drugcentral webpages of chemicals -> bioactivity table -> "mechanism of action" columns + ## - note that these genes can be from non-human species + ## String genus-species name stored in drugcentral.bioactivity.organism field + ## Possible values: haven't found all of them + ## - Most are "Homo sapiens" (2432 / 2650) + ## - Common ones: "Rattus norvegicus" (765), "Mus musculus" (316), "Bos taurus" (226), Escherichia coli (156) + ## - Other: Sus scrofa (56), Bacillus anthracis (13), Lactobacillus casei (11), Enterococcus faecium (2) + ################################################################################################################################ + ## CAN ADD LATER? MISSING operations for the following action_type values + ## because of the partial matching, see https://github.com/biothings/mychem.info/issues/153 + ## * ALLOSTERIC MODULATOR + ## * MODULATOR + drugcentral-bioactivity-activator: + ## 67 records: https://mychem.info/v1/query?q=%20_exists_:%22drugcentral.bioactivity.uniprot.uniprot_id%22%20AND%20_exists_:%22drugcentral.xrefs.umlscui%22%20AND%20drugcentral.bioactivity.action_type:%22ACTIVATOR%22&fields=drugcentral - supportBatch: true useTemplating: true inputs: - ## there are 2382 records with drugcentral.bioactivity fields - ## most of them (2362) also have the drugcentral.xrefs.chembl_id field - - id: CHEMBL.COMPOUND + - id: UMLS semantic: SmallMolecule + requestBodyType: object requestBody: - body: - q: "{{ queryInputs }}" ## no prefix - scopes: drugcentral.xrefs.chembl_id + body: >- + { + "q": [ {{ queryInputs | wrap( '["' , '","ACTIVATOR"]') }} ], + "scopes": ["drugcentral.xrefs.umlscui", "drugcentral.bioactivity.action_type"] + } + outputs: + - id: UniProtKB + semantic: Gene + parameters: + ## only show array elements where action_type is ACTIVATOR + ## the field used in list_filter must be listed in "fields" + list_filter: "drugcentral.bioactivity:action_type=ACTIVATOR" + fields: >- + drugcentral.bioactivity.uniprot.uniprot_id, + drugcentral.bioactivity.action_type, + drugcentral.bioactivity.act_source, + drugcentral.bioactivity.organism + size: 1000 ## note size limit; added just in case + ## using same predicate/qualifiers as dgidb activator + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity + object_direction_qualifier: increased + causal_mechanism_qualifier: activation + source: "infores:drugcentral" + response_mapping: + "$ref": "#/components/x-bte-response-mapping/drugcentral-bioactivity" + # testExamples: + # - qInput: "UMLS:C1452152" ## ingenol mebutate + # oneOutput: "UniProtKB:Q05655" ## PRKCD + drugcentral-bioactivity-agonist: + ## right now "PARTIAL AGONIST" (14 records) is also included because of partial matching, see https://github.com/biothings/mychem.info/issues/153 + ## 563 records: https://mychem.info/v1/query?q=%20_exists_:%22drugcentral.bioactivity.uniprot.uniprot_id%22%20AND%20_exists_:%22drugcentral.xrefs.umlscui%22%20AND%20drugcentral.bioactivity.action_type:%22AGONIST%22&fields=drugcentral + - supportBatch: true + useTemplating: true + inputs: + - id: UMLS + semantic: SmallMolecule + requestBodyType: object + requestBody: + body: >- + { + "q": [ {{ queryInputs | wrap( '["' , '","AGONIST"]') }} ], + "scopes": ["drugcentral.xrefs.umlscui", "drugcentral.bioactivity.action_type"] + } outputs: - id: UniProtKB semantic: Gene - ## not including: - ## - uniprot.gene_symbol, uniprot.swissprot_entry - ## - target_name, target_class - ## - act_type, act_value (since units are unclear) - ## - moa, moa_source (value of 1 seems to mean this interaction is part of - ## drug's mechanism of action (moa)) - ## note on bioactivity.action_type: - ## - has values like AGONIST, ANTAGONIST, INHIBITOR, BLOCKER... - ## - BUT NOT ALL ASSOCATIONS HAVE THIS - ## bioactivity.organism is the organism the gene/protein is in parameters: + list_filter: "drugcentral.bioactivity:action_type=AGONIST" fields: >- drugcentral.bioactivity.uniprot.uniprot_id, + drugcentral.bioactivity.action_type, drugcentral.bioactivity.act_source, + drugcentral.bioactivity.organism + size: 1000 ## note size limit; added just in case + ## using same predicate/qualifiers as dgidb agonist + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity + object_direction_qualifier: increased + causal_mechanism_qualifier: agonism + source: "infores:drugcentral" + response_mapping: + "$ref": "#/components/x-bte-response-mapping/drugcentral-bioactivity" + # testExamples: + # - qInput: "UMLS:C0030071" ## oxymetazoline + # oneOutput: "UniProtKB:P35348" ## ADRA1A + drugcentral-bioactivity-antagonist: + ## right now "ALLOSTERIC ANTAGONIST" (1 chem / 6+ genes) is also included because of partial matching, see https://github.com/biothings/mychem.info/issues/153 + ## 382 records: https://mychem.info/v1/query?q=%20_exists_:%22drugcentral.bioactivity.uniprot.uniprot_id%22%20AND%20_exists_:%22drugcentral.xrefs.umlscui%22%20AND%20drugcentral.bioactivity.action_type:%22ANTAGONIST%22&fields=drugcentral + - supportBatch: true + useTemplating: true + inputs: + - id: UMLS + semantic: SmallMolecule + requestBodyType: object + requestBody: + body: >- + { + "q": [ {{ queryInputs | wrap( '["' , '","ANTAGONIST"]') }} ], + "scopes": ["drugcentral.xrefs.umlscui", "drugcentral.bioactivity.action_type"] + } + outputs: + - id: UniProtKB + semantic: Gene + parameters: + list_filter: "drugcentral.bioactivity:action_type=ANTAGONIST" + fields: >- + drugcentral.bioactivity.uniprot.uniprot_id, drugcentral.bioactivity.action_type, + drugcentral.bioactivity.act_source, drugcentral.bioactivity.organism size: 1000 ## note size limit; added just in case + ## using same predicate/qualifiers as dgidb antagonist + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity + object_direction_qualifier: decreased + causal_mechanism_qualifier: antagonism + source: "infores:drugcentral" + response_mapping: + "$ref": "#/components/x-bte-response-mapping/drugcentral-bioactivity" + # testExamples: + # - qInput: "UMLS:C0724441" ## yohimbine + # oneOutput: "UniProtKB:P41595" ## HTR2B + drugcentral-bioactivity-antibody: + ## 121 records: https://mychem.info/v1/query?q=%20_exists_:%22drugcentral.bioactivity.uniprot.uniprot_id%22%20AND%20_exists_:%22drugcentral.xrefs.umlscui%22%20AND%20drugcentral.bioactivity.action_type:%22ANTIBODY%20BINDING%22&fields=drugcentral + - supportBatch: true + useTemplating: true + inputs: + - id: UMLS + semantic: SmallMolecule + requestBodyType: object + requestBody: + body: >- + { + "q": [ {{ queryInputs | wrap( '["' , '","ANTIBODY BINDING"]') }} ], + "scopes": ["drugcentral.xrefs.umlscui", "drugcentral.bioactivity.action_type"] + } + outputs: + - id: UniProtKB + semantic: Gene + parameters: + list_filter: "drugcentral.bioactivity:action_type=ANTIBODY BINDING" + fields: >- + drugcentral.bioactivity.uniprot.uniprot_id, + drugcentral.bioactivity.action_type, + drugcentral.bioactivity.act_source, + drugcentral.bioactivity.organism + size: 1000 ## note size limit; added just in case + ## using same predicate/qualifiers as dgidb antibody, general terms + ## while the "affects-causes-decreased-activity_or_abundance" matches antibodies that "block binding to receptors/signal transduction", + ## it doesn't seem to match other antibodies that "promote destruction by immune cells" + ## https://en.wikipedia.org/wiki/Monoclonal_antibody_therapy predicate: physically_interacts_with - ## would like something more specific, mapped to drugcentral's bioactivity concept... + qualifiers: + causal_mechanism_qualifier: antibody_inhibition source: "infores:drugcentral" response_mapping: "$ref": "#/components/x-bte-response-mapping/drugcentral-bioactivity" # testExamples: - # - qInput: "CHEMBL.COMPOUND:CHEMBL3545412" ## pemafibrate - # oneOutput: "UniProtKB:Q07869" ## PPARA + # - qInput: "UMLS:C1172734" ## natalizumab + # oneOutput: "UniProtKB:P05556" ## ITGA4 + drugcentral-bioactivity-antisense-inhibitor: + ## 9 records: https://mychem.info/v1/query?q=%20_exists_:%22drugcentral.bioactivity.uniprot.uniprot_id%22%20AND%20_exists_:%22drugcentral.xrefs.umlscui%22%20AND%20drugcentral.bioactivity.action_type:%22ANTISENSE%20INHIBITOR%22&fields=drugcentral + - supportBatch: true + useTemplating: true + inputs: + - id: UMLS + semantic: SmallMolecule + requestBodyType: object + requestBody: + body: >- + { + "q": [ {{ queryInputs | wrap( '["' , '","ANTISENSE INHIBITOR"]') }} ], + "scopes": ["drugcentral.xrefs.umlscui", "drugcentral.bioactivity.action_type"] + } + outputs: + - id: UniProtKB + semantic: Gene + parameters: + list_filter: "drugcentral.bioactivity:action_type=ANTISENSE INHIBITOR" + fields: >- + drugcentral.bioactivity.uniprot.uniprot_id, + drugcentral.bioactivity.action_type, + drugcentral.bioactivity.act_source, + drugcentral.bioactivity.organism + size: 1000 ## note size limit; added just in case + ## using same predicate/qualifiers as dgidb antisense oligonucleotide (commented-out operation) + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: synthesis + object_direction_qualifier: decreased + source: "infores:drugcentral" + response_mapping: + "$ref": "#/components/x-bte-response-mapping/drugcentral-bioactivity" + # testExamples: + # - qInput: "UMLS:C4726970" ## volanesorsen + # oneOutput: "UniProtKB:P02656" ## APOC3 + drugcentral-bioactivity-binding-agent: + ## 22 records: https://mychem.info/v1/query?q=%20_exists_:%22drugcentral.bioactivity.uniprot.uniprot_id%22%20AND%20_exists_:%22drugcentral.xrefs.umlscui%22%20AND%20drugcentral.bioactivity.action_type:%22BINDING%20AGENT%22&fields=drugcentral + - supportBatch: true + useTemplating: true + inputs: + - id: UMLS + semantic: SmallMolecule + requestBodyType: object + requestBody: + body: >- + { + "q": [ {{ queryInputs | wrap( '["' , '","BINDING AGENT"]') }} ], + "scopes": ["drugcentral.xrefs.umlscui", "drugcentral.bioactivity.action_type"] + } + outputs: + - id: UniProtKB + semantic: Gene + parameters: + list_filter: "drugcentral.bioactivity:action_type=BINDING AGENT" + fields: >- + drugcentral.bioactivity.uniprot.uniprot_id, + drugcentral.bioactivity.action_type, + drugcentral.bioactivity.act_source, + drugcentral.bioactivity.organism + size: 1000 ## note size limit; added just in case + predicate: physically_interacts_with + source: "infores:drugcentral" + response_mapping: + "$ref": "#/components/x-bte-response-mapping/drugcentral-bioactivity" + # testExamples: + # - qInput: "UMLS:C2346797" ## moxetumomab pasudotox + # oneOutput: "UniProtKB:P20273" ## CD22 + drugcentral-bioactivity-blocker: + ## 152 records: https://mychem.info/v1/query?q=%20_exists_:%22drugcentral.bioactivity.uniprot.uniprot_id%22%20AND%20_exists_:%22drugcentral.xrefs.umlscui%22%20AND%20drugcentral.bioactivity.action_type:%22BLOCKER%22&fields=drugcentral + - supportBatch: true + useTemplating: true + inputs: + - id: UMLS + semantic: SmallMolecule + requestBodyType: object + requestBody: + body: >- + { + "q": [ {{ queryInputs | wrap( '["' , '","BLOCKER"]') }} ], + "scopes": ["drugcentral.xrefs.umlscui", "drugcentral.bioactivity.action_type"] + } + outputs: + - id: UniProtKB + semantic: Gene + parameters: + list_filter: "drugcentral.bioactivity:action_type=BLOCKER" + fields: >- + drugcentral.bioactivity.uniprot.uniprot_id, + drugcentral.bioactivity.action_type, + drugcentral.bioactivity.act_source, + drugcentral.bioactivity.organism + size: 1000 ## note size limit; added just in case + ## using same predicate/qualifiers as dgidb blocker + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity + object_direction_qualifier: decreased + causal_mechanism_qualifier: molecular_channel_blockage + source: "infores:drugcentral" + response_mapping: + "$ref": "#/components/x-bte-response-mapping/drugcentral-bioactivity" + # testExamples: + # - qInput: "UMLS:C0242375" ## lidocaine + # oneOutput: "UniProtKB:Q99250" ## SCN2A + drugcentral-bioactivity-gating-inhibitor: + ## 28 records: https://mychem.info/v1/query?q=%20_exists_:%22drugcentral.bioactivity.uniprot.uniprot_id%22%20AND%20_exists_:%22drugcentral.xrefs.umlscui%22%20AND%20drugcentral.bioactivity.action_type:%22GATING%20INHIBITOR%22&fields=drugcentral + - supportBatch: true + useTemplating: true + inputs: + - id: UMLS + semantic: SmallMolecule + requestBodyType: object + requestBody: + body: >- + { + "q": [ {{ queryInputs | wrap( '["' , '","GATING INHIBITOR"]') }} ], + "scopes": ["drugcentral.xrefs.umlscui", "drugcentral.bioactivity.action_type"] + } + outputs: + - id: UniProtKB + semantic: Gene + parameters: + list_filter: "drugcentral.bioactivity:action_type=GATING INHIBITOR" + fields: >- + drugcentral.bioactivity.uniprot.uniprot_id, + drugcentral.bioactivity.action_type, + drugcentral.bioactivity.act_source, + drugcentral.bioactivity.organism + size: 1000 ## note size limit; added just in case + ## using same predicate/qualifiers as dgidb blocker + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity + object_direction_qualifier: decreased + causal_mechanism_qualifier: molecular_channel_blockage + source: "infores:drugcentral" + response_mapping: + "$ref": "#/components/x-bte-response-mapping/drugcentral-bioactivity" + # testExamples: + # - qInput: "UMLS:C0028066" ## nifedipine + # oneOutput: "UniProtKB:Q01668" ## CACNA1D + drugcentral-bioactivity-inhibitor: + ## 793 records: https://mychem.info/v1/query?q=%20_exists_:%22drugcentral.bioactivity.uniprot.uniprot_id%22%20AND%20_exists_:%22drugcentral.xrefs.umlscui%22%20AND%20drugcentral.bioactivity.action_type:%22INHIBITOR%22&fields=drugcentral + - supportBatch: true + useTemplating: true + inputs: + - id: UMLS + semantic: SmallMolecule + requestBodyType: object + requestBody: + body: >- + { + "q": [ {{ queryInputs | wrap( '["' , '","INHIBITOR"]') }} ], + "scopes": ["drugcentral.xrefs.umlscui", "drugcentral.bioactivity.action_type"] + } + outputs: + - id: UniProtKB + semantic: Gene + parameters: + list_filter: "drugcentral.bioactivity:action_type=INHIBITOR" + fields: >- + drugcentral.bioactivity.uniprot.uniprot_id, + drugcentral.bioactivity.action_type, + drugcentral.bioactivity.act_source, + drugcentral.bioactivity.organism + size: 1000 ## note size limit; added just in case + ## using same predicate/qualifiers as dgidb inhibitor + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: decreased + causal_mechanism_qualifier: inhibition + source: "infores:drugcentral" + response_mapping: + "$ref": "#/components/x-bte-response-mapping/drugcentral-bioactivity" + # testExamples: + # - qInput: "UMLS:C2703109" ## ponatinib + # oneOutput: "UniProtKB:P35968" ## KDR + drugcentral-bioactivity-opener: + ## 15 records: https://mychem.info/v1/query?q=%20_exists_:%22drugcentral.bioactivity.uniprot.uniprot_id%22%20AND%20_exists_:%22drugcentral.xrefs.umlscui%22%20AND%20drugcentral.bioactivity.action_type:%22OPENER%22&fields=drugcentral + - supportBatch: true + useTemplating: true + inputs: + - id: UMLS + semantic: SmallMolecule + requestBodyType: object + requestBody: + body: >- + { + "q": [ {{ queryInputs | wrap( '["' , '","OPENER"]') }} ], + "scopes": ["drugcentral.xrefs.umlscui", "drugcentral.bioactivity.action_type"] + } + outputs: + - id: UniProtKB + semantic: Gene + parameters: + list_filter: "drugcentral.bioactivity:action_type=OPENER" + fields: >- + drugcentral.bioactivity.uniprot.uniprot_id, + drugcentral.bioactivity.action_type, + drugcentral.bioactivity.act_source, + drugcentral.bioactivity.organism + size: 1000 ## note size limit; added just in case + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity + object_direction_qualifier: increased + causal_mechanism_qualifier: molecular_channel_opening + source: "infores:drugcentral" + response_mapping: + "$ref": "#/components/x-bte-response-mapping/drugcentral-bioactivity" + # testExamples: + # - qInput: "UMLS:C3265565" ## sevoflurane + # oneOutput: "UniProtKB:O95069" ## KCNK2 + drugcentral-bioactivity-positive-allosteric-modulator: + ## 44 records: https://mychem.info/v1/query?q=%20_exists_:%22drugcentral.bioactivity.uniprot.uniprot_id%22%20AND%20_exists_:%22drugcentral.xrefs.umlscui%22%20AND%20drugcentral.bioactivity.action_type:%22POSITIVE%20ALLOSTERIC%20MODULATOR%22&fields=drugcentral + - supportBatch: true + useTemplating: true + inputs: + - id: UMLS + semantic: SmallMolecule + requestBodyType: object + requestBody: + body: >- + { + "q": [ {{ queryInputs | wrap( '["' , '","POSITIVE ALLOSTERIC MODULATOR"]') }} ], + "scopes": ["drugcentral.xrefs.umlscui", "drugcentral.bioactivity.action_type"] + } + outputs: + - id: UniProtKB + semantic: Gene + parameters: + list_filter: "drugcentral.bioactivity:action_type=POSITIVE ALLOSTERIC MODULATOR" + fields: >- + drugcentral.bioactivity.uniprot.uniprot_id, + drugcentral.bioactivity.action_type, + drugcentral.bioactivity.act_source, + drugcentral.bioactivity.organism + size: 1000 ## note size limit; added just in case + ## differs from dgidb's "positive modulator": no definition here means we use activity_or_abundance. Also we can use the causal mechanism term + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased + causal_mechanism_qualifier: positive_allosteric_modulation + source: "infores:drugcentral" + response_mapping: + "$ref": "#/components/x-bte-response-mapping/drugcentral-bioactivity" + # testExamples: + # - qInput: "UMLS:C0072828" ## quazepam + # oneOutput: "UniProtKB:P18505" ## GABRA3 + drugcentral-bioactivity-positive-modulator: + ## 14 records: https://mychem.info/v1/query?q=%20_exists_:%22drugcentral.bioactivity.uniprot.uniprot_id%22%20AND%20_exists_:%22drugcentral.xrefs.umlscui%22%20AND%20drugcentral.bioactivity.action_type:%22POSITIVE%20MODULATOR%22&fields=drugcentral + - supportBatch: true + useTemplating: true + inputs: + - id: UMLS + semantic: SmallMolecule + requestBodyType: object + requestBody: + body: >- + { + "q": [ {{ queryInputs | wrap( '["' , '","POSITIVE MODULATOR"]') }} ], + "scopes": ["drugcentral.xrefs.umlscui", "drugcentral.bioactivity.action_type"] + } + outputs: + - id: UniProtKB + semantic: Gene + parameters: + list_filter: "drugcentral.bioactivity:action_type=POSITIVE MODULATOR" + fields: >- + drugcentral.bioactivity.uniprot.uniprot_id, + drugcentral.bioactivity.action_type, + drugcentral.bioactivity.act_source, + drugcentral.bioactivity.organism + size: 1000 ## note size limit; added just in case + ## differs from dgidb's "positive modulator": no definition here means we use activity_or_abundance + ## not using causal mech qualifier "positive_allosteric_modulation" since it's not clear that it's allosteric + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased + source: "infores:drugcentral" + response_mapping: + "$ref": "#/components/x-bte-response-mapping/drugcentral-bioactivity" + # testExamples: + # - qInput: "UMLS:C4256131" ## enflurane + # oneOutput: "UniProtKB:P23415" ## GLRA1 drugcentral-bioactivity-rev: - supportBatch: true useTemplating: true @@ -940,18 +1398,21 @@ components: q: "{{ queryInputs }}" ## no prefix scopes: drugcentral.bioactivity.uniprot.uniprot_id outputs: - - id: CHEMBL.COMPOUND + - id: UMLS semantic: SmallMolecule parameters: - fields: drugcentral.xrefs.chembl_id + fields: drugcentral.xrefs.umlscui size: 1000 ## note size limit - predicate: physically_interacts_with + ## using the same predicate as dgidb's no-relationship-specified. + ## not using psychically_interacts_with because it's not clear that all relationships involve a physical interaction between the chem and gene product + ## not using affected_by because that's trickier to use with the new qualifier-modeling (can't ask for Edges without any qualifiers) + predicate: interacts_with source: "infores:drugcentral" response_mapping: - "$ref": "#/components/x-bte-response-mapping/drugcentral-chembl" + "$ref": "#/components/x-bte-response-mapping/drugcentral-umls" # testExamples: - # - qInput: "UniProtKB:P30968" ## GNRHR - # oneOutput: "CHEMBL.COMPOUND:CHEMBL1252" ## abarelix + # - qInput: "UniProtKB:Q07912" ## TNK2 + # oneOutput: "UMLS:C4086264" ## entrectinib drugcentral-contraindication: - supportBatch: true useTemplating: true From e3930e353db8b7588d202ebd8c449a78b86a4d49 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Thu, 23 Feb 2023 21:30:16 -0800 Subject: [PATCH 41/46] bioplanet,mygene,myvariant,biolink/monarch: update to add node label support will work with https://github.com/biothings/api-respone-transform.js/pull/44 to add node labels when SRI Node Normalizer doesn't related to https://github.com/biothings/BioThings_Explorer_TRAPI/issues/539 but for instances that don't have the PR's code, the response-mappings will become normal edge-attributes --- biolink/openapi.yml | 27 +++++++++-- bioplanet/bioplanet-pathway-disease.yaml | 12 ++--- bioplanet/bioplanet-pathway-gene.yaml | 6 +-- mygene.info/openapi_full.yml | 36 +++++++++------ myvariant.info/openapi_full.yml | 57 +++++++++++++++--------- 5 files changed, 90 insertions(+), 48 deletions(-) diff --git a/biolink/openapi.yml b/biolink/openapi.yml index 6209b6b8..00037fa5 100644 --- a/biolink/openapi.yml +++ b/biolink/openapi.yml @@ -792,6 +792,14 @@ components: ## this often has "expressed in" with inverse: true. Meaning the actual relation should be "expresses" "biolink:original_predicate": associations.relation.label pubmed: associations.publications.id + gene-hgnc-dbsnp-start: + HGNC: associations.object.HGNC + input_name: associations.subject.label ## for the dbsnp input + monarch_source_database: associations.provided_by + ## there's also a relation.id and relation.inverse. + ## this often has "expressed in" with inverse: true. Meaning the actual relation should be "expresses" + "biolink:original_predicate": associations.relation.label + pubmed: associations.publications.id pathway-react: REACT: associations.object.REACT monarch_source_database: associations.provided_by @@ -802,8 +810,15 @@ components: monarch_source_database: associations.provided_by pubmed: associations.publications.id "biolink:original_predicate": associations.relation.label + phenotype-hp-dbsnp-start: + HP: associations.object.HP + input_name: associations.subject.label ## for the dbsnp input + monarch_source_database: associations.provided_by + pubmed: associations.publications.id + "biolink:original_predicate": associations.relation.label variant-dbsnp: DBSNP: associations.object.dbSNP + output_name: associations.object.label monarch_source_database: associations.provided_by pubmed: associations.publications.id "biolink:original_predicate": associations.relation.label @@ -817,6 +832,12 @@ components: monarch_source_database: associations.provided_by "biolink:original_predicate": associations.relation.label pubmed: associations.publications.id + disease-mondo-dbsnp-start: + MONDO: associations.object.MONDO + input_name: associations.subject.label ## for the dbsnp input + monarch_source_database: associations.provided_by + "biolink:original_predicate": associations.relation.label + pubmed: associations.publications.id x-bte-kgs-operations: ## other useful endpoints for x-bte annotation are... ## /relation/usage/between/{subject_category}/{object_category} @@ -1273,7 +1294,7 @@ components: predicate: contributes_to source: "infores:monarchinitiative" response_mapping: - "$ref": "#/components/x-bte-response-mapping/disease-mondo" + "$ref": "#/components/x-bte-response-mapping/disease-mondo-dbsnp-start" # testExamples: # - qInput: "DBSNP:rs227731" # oneOutput: "MONDO:0004747" ## cleft lip (disease) @@ -1299,7 +1320,7 @@ components: predicate: is_sequence_variant_of source: "infores:monarchinitiative" response_mapping: - "$ref": "#/components/x-bte-response-mapping/gene-hgnc" + "$ref": "#/components/x-bte-response-mapping/gene-hgnc-dbsnp-start" # testExamples: # - qInput: "DBSNP:rs11879191" # oneOutput: "HGNC:1735" ## CDC37 @@ -1325,7 +1346,7 @@ components: predicate: related_to source: "infores:monarchinitiative" response_mapping: - "$ref": "#/components/x-bte-response-mapping/phenotype-hp" + "$ref": "#/components/x-bte-response-mapping/phenotype-hp-dbsnp-start" # testExamples: # - qInput: "DBSNP:rs115165302" # oneOutput: "HP:0002944" ## Thoracolumbar scoliosis diff --git a/bioplanet/bioplanet-pathway-disease.yaml b/bioplanet/bioplanet-pathway-disease.yaml index ede630c5..bc298dcd 100644 --- a/bioplanet/bioplanet-pathway-disease.yaml +++ b/bioplanet/bioplanet-pathway-disease.yaml @@ -638,16 +638,16 @@ components: # oneOutput: "ncats.bioplanet:bioplanet_26" ## D4-GDI signaling pathway x-bte-response-mapping: disease: - OMIM: subject.PHENO_TYPE ## no prefix - pathway_name: object.PATHWAY_NAME + OMIM: subject.PHENO_TYPE ## no prefix + input_name: object.PATHWAY_NAME ## BTE will use this for node name (node normalizer doesn't provide) pathway_categories: object.PATHWAY_CATEGORIES - disease_name: subject.DISEASE_NAME + output_name: subject.DISEASE_NAME ## BTE will use this for node name if node normalizer didn't provide related_genes_symbol: relation.GENE_SYMBOL related_genes_ncbigene: relation.GENE_ID pathway: - "ncats.bioplanet": object.PATHWAY_ID ## no prefix - pathway_name: object.PATHWAY_NAME + "ncats.bioplanet": object.PATHWAY_ID ## no prefix + output_name: object.PATHWAY_NAME ## BTE will use this for node name (node normalizer doesn't provide) pathway_categories: object.PATHWAY_CATEGORIES - disease_name: subject.DISEASE_NAME + input_name: subject.DISEASE_NAME ## BTE will use this for node name if node normalizer didn't provide related_genes_symbol: relation.GENE_SYMBOL related_genes_ncbigene: relation.GENE_ID diff --git a/bioplanet/bioplanet-pathway-gene.yaml b/bioplanet/bioplanet-pathway-gene.yaml index 41039944..f7a114bf 100644 --- a/bioplanet/bioplanet-pathway-gene.yaml +++ b/bioplanet/bioplanet-pathway-gene.yaml @@ -629,10 +629,10 @@ components: # oneOutput: "ncats.bioplanet:bioplanet_789" ## Dermatan sulfate biosynthesis x-bte-response-mapping: gene: - NCBIGene: subject.GENE_ID ## no prefix - pathway_name: object.PATHWAY_NAME + NCBIGene: subject.GENE_ID ## no prefix + input_name: object.PATHWAY_NAME ## BTE will use this for node name (node normalizer doesn't provide) pathway_categories: object.PATHWAY_CATEGORIES pathway: "ncats.bioplanet": object.PATHWAY_ID ## no prefix - pathway_name: object.PATHWAY_NAME + output_name: object.PATHWAY_NAME ## BTE will use this for node name (node normalizer doesn't provide) pathway_categories: object.PATHWAY_CATEGORIES diff --git a/mygene.info/openapi_full.yml b/mygene.info/openapi_full.yml index 2dacf999..33944718 100644 --- a/mygene.info/openapi_full.yml +++ b/mygene.info/openapi_full.yml @@ -712,7 +712,7 @@ components: ## notes: ## - not including Gene <-> Transcript <-> Protein or Gene <-> Protein due to conflation, lack of use in Translator right now ## - for ConsensusPathDB, look at "content information" tab at http://cpdb.molgen.mpg.de/CPDB to see versions of the pathway databases they used - ## - pathway info includes Reactome, KEGG, Wikipathways, Biocarta + ## - pathway info includes Reactome, , Wikipathways, Biocarta ## However, SRI ID resolver only accepts SMPDB, REACT, GO, PANTHER.PATHWAY right now ## not included: humancyc, mousecyc, netpath, pharmgkb, pid, yeastcyc PathwayHasGene1: ## using Reactome, KEGG, Wikipathways, Biocarta @@ -755,13 +755,13 @@ components: semantic: Gene parameters: ## all records with pathway.kegg field also have entrezgene field - fields: entrezgene + fields: entrezgene,pathway.kegg.name species: human size: 1000 ## note the size limit predicate: has_participant source: "infores:cpdb" ## ConsensusPathDB response_mapping: - $ref: "#/components/x-bte-response-mapping/entrezgene" + $ref: "#/components/x-bte-response-mapping/entrezgene-keggname" # testExamples: # - qInput: "KEGG.PATHWAY:hsa00120" ## Primary bile acid biosynthesis - Homo sapiens (human) # oneOutput: "NCBIGene:8309" ## ACOX2 @@ -780,13 +780,13 @@ components: semantic: Gene parameters: ## all records with pathway.wikipathways field also have entrezgene field - fields: entrezgene + fields: entrezgene,pathway.wikipathways.name species: human size: 1000 ## note the size limit predicate: has_participant source: "infores:cpdb" ## ConsensusPathDB response_mapping: - $ref: "#/components/x-bte-response-mapping/entrezgene" + $ref: "#/components/x-bte-response-mapping/entrezgene-wikiname" # testExamples: # - qInput: "WIKIPATHWAYS:WP2034" ## Leptin signaling pathway # oneOutput: "NCBIGene:3953" ## LEPR @@ -805,13 +805,13 @@ components: semantic: Gene parameters: ## all records with pathway.biocarta field also have entrezgene field - fields: entrezgene + fields: entrezgene,pathway.biocarta.name species: human size: 1000 ## note the size limit predicate: has_participant source: "infores:cpdb" ## ConsensusPathDB response_mapping: - $ref: "#/components/x-bte-response-mapping/entrezgene" + $ref: "#/components/x-bte-response-mapping/entrezgene-biocartaname" # testExamples: # - qInput: "BIOCARTA:raspathway" # oneOutput: "NCBIGene:3265" ## HRAS @@ -857,7 +857,7 @@ components: parameters: ## not including name since BTE isn't ingesting properly right now fields: >- - pathway.kegg.id + pathway.kegg.id,pathway.kegg.name species: human size: 1000 predicate: participates_in @@ -883,7 +883,7 @@ components: parameters: ## not including name since BTE isn't ingesting properly right now fields: >- - pathway.wikipathways.id + pathway.wikipathways.id,pathway.wikipathways.name species: human size: 1000 predicate: participates_in @@ -909,7 +909,7 @@ components: parameters: ## not including name since BTE isn't ingesting properly right now fields: >- - pathway.biocarta.id + pathway.biocarta.id,pathway.biocarta.name species: human size: 1000 predicate: participates_in @@ -1203,18 +1203,26 @@ components: x-bte-response-mapping: entrezgene: NCBIGene: entrezgene ## no prefix + entrezgene-keggname: + NCBIGene: entrezgene ## no prefix + input_name: pathway.kegg.name + entrezgene-wikiname: + NCBIGene: entrezgene ## no prefix + input_name: pathway.wikipathways.name + entrezgene-biocartaname: + NCBIGene: entrezgene ## no prefix + input_name: pathway.biocarta.name reactomePathway: REACT: pathway.reactome.id ## no prefix - # name: pathway.reactome.name keggPathway: "KEGG.PATHWAY": pathway.kegg.id ## no prefix - # name: pathway.kegg.name + output_name: pathway.kegg.name wikipathway: WIKIPATHWAYS: pathway.wikipathways.id ## no prefix - # name: pathway.wikipathways.name + output_name: pathway.wikipathways.name biocarta: BIOCARTA: pathway.biocarta.id ## no prefix - # name: pathway.biocarta.name + output_name: pathway.biocarta.name biologicalProcess: GO: go.BP.id ## HAS PREFIX (GO) evidence: go.BP.evidence ## categorical variable? diff --git a/myvariant.info/openapi_full.yml b/myvariant.info/openapi_full.yml index 915954c1..d1194b8c 100644 --- a/myvariant.info/openapi_full.yml +++ b/myvariant.info/openapi_full.yml @@ -638,6 +638,8 @@ components: NCBIGene: civic.entrez_id civic-variantDisease: DOID: civic.evidence_items.disease.doid + ## variant name + input_name: _id ## categorical var / relation civic_clinical_significance: civic.evidence_items.clinical_significance ## free text @@ -658,10 +660,13 @@ components: civic_variant_origin: civic.evidence_items.variant_origin dbsnp-rsid: DBSNP: dbsnp.rsid ## no prefix + output_name: _id ## variant name dbsnp-gene: NCBIGene: dbsnp.gene.geneid ## no prefix + input_name: _id ## variant name clinvar-rsid: DBSNP: clinvar.rsid ## no prefix + output_name: _id ## variant name clinvar-geneDisease: OMIM: clinvar.rcv.conditions.identifiers.omim ## no prefix ## edge attributes @@ -671,10 +676,12 @@ components: clinvar_num_submitters: clinvar.rcv.number_submitters clinvar_variant_origin: clinvar.rcv.origin clinvar_review_status: clinvar.rcv.review_status - clinvar-gene: + clinvar-gene-variant-start: NCBIGene: clinvar.gene.id ## no prefix + input_name: _id ## variant name clinvar-variantDisease: OMIM: clinvar.rcv.conditions.identifiers.omim ## no prefix + input_name: _id ## variant name ## edge attributes clinvar_clinical_significance: clinvar.rcv.clinical_significance ## similar to relation clinvar_variant_in_gene: clinvar.gene.symbol ## context: gene @@ -682,12 +689,15 @@ components: clinvar_num_submitters: clinvar.rcv.number_submitters clinvar_variant_origin: clinvar.rcv.origin clinvar_review_status: clinvar.rcv.review_status + clinvar-gene: + NCBIGene: clinvar.gene.id ## no prefix docm-disease-only: DOID: docm.doid docm-gene: ENSEMBL: docm.ensembl_gene_id - docm-disease-and-gene: + docm-disease-variant-start: DOID: docm.doid + input_name: _id ## variant name docm_variant_in_gene: docm.genename ## not included: ## - cgi: only 323 records, doesn't have IDs for disease, gene, or drug ID... @@ -781,7 +791,8 @@ components: ## using entrez gene name for now (human-readable) rather than id fields: >- civic.evidence_items, - civic.entrez_name + civic.entrez_name, + _id size: 1000 ## note size limit; added just in case predicate: affects source: "infores:civic" @@ -789,7 +800,7 @@ components: "$ref": "#/components/x-bte-response-mapping/civic-variantDisease" ## this record has drug interaction: https://myvariant.info/v1/query?q=_exists_:%22civic.evidence_items.drug_interaction_type%22%20AND%20_exists_:%22dbsnp.rsid%22 # testExamples: - # - qInput: "DBSNP:rs121913521" ## in KIT + # - qInput: "DBSNP:rs121913521" ## chr4:g.55593613T>G in KIT # oneOutput: "DOID:9253" ## Gastrointestinal Stromal Tumor civic-variantDisease-rev: - supportBatch: true @@ -805,7 +816,7 @@ components: - id: DBSNP semantic: SequenceVariant parameters: - fields: dbsnp.rsid + fields: dbsnp.rsid,_id size: 1000 ## note size limit; added just in case predicate: affected_by source: "infores:civic" @@ -814,7 +825,7 @@ components: ## this record has drug interaction: https://myvariant.info/v1/query?q=_exists_:%22civic.evidence_items.drug_interaction_type%22%20AND%20_exists_:%22dbsnp.rsid%22 # testExamples: # - qInput: "DOID:219" ## Colon Cancer - # oneOutput: "DBSNP:rs121913470" ## in ERBB2 + # oneOutput: "DBSNP:rs121913470" ## chr17:g.37880220T>C in ERBB2 dbsnp-variantGene: ## note: there may be redundant results in the response ## there are 446 million records @@ -831,14 +842,14 @@ components: - id: NCBIGene semantic: Gene parameters: - fields: dbsnp.gene.geneid ## no prefix + fields: dbsnp.gene.geneid,_id ## no prefix predicate: is_sequence_variant_of source: "infores:dbsnp" response_mapping: "$ref": "#/components/x-bte-response-mapping/dbsnp-gene" ## https://myvariant.info/v1/query?q=_exists_:%22dbsnp.rsid%22%20AND%20_exists_:%22dbsnp.gene.geneid%22 # testExamples: - # - qInput: "DBSNP:rs770112667" + # - qInput: "DBSNP:rs770112667" ## chr10:g.14260675G>A # oneOutput: "NCBIGene:55691" ## FRMD4A dbsnp-variantGene-rev: - supportBatch: true @@ -854,7 +865,7 @@ components: - id: DBSNP semantic: SequenceVariant parameters: - fields: dbsnp.rsid + fields: dbsnp.rsid,_id predicate: has_sequence_variant source: "infores:dbsnp" response_mapping: @@ -862,7 +873,7 @@ components: ## https://myvariant.info/v1/query?q=_exists_:%22dbsnp.rsid%22%20AND%20_exists_:%22dbsnp.gene.geneid%22 # testExamples: # - qInput: "NCBIGene:55691" ## FRMD4A - # oneOutput: "DBSNP:rs767038114" + # oneOutput: "DBSNP:rs767038114" ## chr10:g.13693999G>A clinvar-variantGene: ## there are 43k records with clinvar.rsid but no dbsnp ## https://myvariant.info/v1/query?q=_exists_:%22clinvar.rsid%22%20AND%20NOT%20_exists_:%22dbsnp.rsid%22 @@ -879,13 +890,13 @@ components: - id: NCBIGene semantic: Gene parameters: - fields: clinvar.gene.id ## no prefix + fields: clinvar.gene.id,_id ## no prefix predicate: is_sequence_variant_of source: "infores:clinvar" response_mapping: - "$ref": "#/components/x-bte-response-mapping/clinvar-gene" + "$ref": "#/components/x-bte-response-mapping/clinvar-gene-variant-start" # testExamples: - # - qInput: "DBSNP:rs794727661" + # - qInput: "DBSNP:rs794727661" ## chrX:g.32361300dup # oneOutput: "NCBIGene:1756" ## DMD clinvar-variantGene-rev: - supportBatch: true @@ -901,14 +912,14 @@ components: - id: DBSNP semantic: SequenceVariant parameters: - fields: clinvar.rsid ## no prefix + fields: clinvar.rsid,_id ## no prefix predicate: has_sequence_variant source: "infores:clinvar" response_mapping: "$ref": "#/components/x-bte-response-mapping/clinvar-rsid" # testExamples: # - qInput: "NCBIGene:284098" ## PIGW - # oneOutput: "DBSNP:rs915498700" + # oneOutput: "DBSNP:rs915498700" ## chr17:g.34893784T>C clinvar-geneDisease: ## - conditions.identifiers can include multiple kinds ## some conditions have no IDs, some have multiple IDs (not all have OMIM). @@ -993,6 +1004,7 @@ components: ## using gene symbol rather than gene.id so it's human-readable fields: >- clinvar.rcv.conditions.identifiers.omim, + _id, clinvar.rcv.clinical_significance, clinvar.gene.symbol, clinvar.rcv.last_evaluated, @@ -1008,7 +1020,7 @@ components: "$ref": "#/components/x-bte-response-mapping/clinvar-variantDisease" ## https://myvariant.info/v1/query?q=_exists_:%22clinvar.rcv.conditions.identifiers.omim%22%20AND%20_exists_:%22dbsnp.rsid%22 # testExamples: - # - qInput: "DBSNP:rs1193171808" + # - qInput: "DBSNP:rs1193171808" ## chr8:g.42171847A>G # oneOutput: "OMIM:615592" ## severe combined immunodeficiency due to IKK2 deficiency clinvar-variantDisease-rev: - supportBatch: true @@ -1024,7 +1036,7 @@ components: - id: DBSNP semantic: SequenceVariant parameters: - fields: dbsnp.rsid + fields: dbsnp.rsid,_id size: 1000 ## note size limit predicate: related_to source: "infores:clinvar" @@ -1032,7 +1044,7 @@ components: "$ref": "#/components/x-bte-response-mapping/dbsnp-rsid" # testExamples: # - qInput: "OMIM:602629" ## Torsion dystonia 6 (DYT6) - # oneOutput: "DBSNP:rs1480200060" + # oneOutput: "DBSNP:rs1480200060" ## chr8:g.42692270T>C docm-geneDisease: - supportBatch: true useTemplating: true @@ -1103,6 +1115,7 @@ components: ## DOID has prefix, using gene name so it's human readable rather than gene id fields: >- docm.doid, + _id, docm.genename size: 1000 ## note size limit; added just in case predicate: related_to @@ -1110,10 +1123,10 @@ components: ## looks like it's from http://www.docm.info/ source: "infores:docm" response_mapping: - "$ref": "#/components/x-bte-response-mapping/docm-disease-and-gene" + "$ref": "#/components/x-bte-response-mapping/docm-disease-variant-start" ## https://myvariant.info/v1/query?q=_exists_:%22docm.ensembl_gene_id%22%20AND%20_exists_:%22dbsnp.rsid%22 # testExamples: - # - qInput: "DBSNP:rs759487569" ## in GATA2 + # - qInput: "DBSNP:rs759487569" ## chr3:g.128200743C>T in GATA2 # oneOutput: "DOID:9119" ## acute myeloid leukemia (AML) docm-variantDisease-rev: - supportBatch: true @@ -1129,7 +1142,7 @@ components: - id: DBSNP semantic: SequenceVariant parameters: - fields: dbsnp.rsid + fields: dbsnp.rsid,_id size: 1000 ## note size limit predicate: related_to source: "infores:docm" @@ -1138,4 +1151,4 @@ components: ## https://myvariant.info/v1/query?q=_exists_:%22docm.ensembl_gene_id%22%20AND%20_exists_:%22dbsnp.rsid%22 # testExamples: # - qInput: "DOID:1781" ## Thyroid Cancer - # oneOutput: "DBSNP:rs121913254" ## in NRAS + # oneOutput: "DBSNP:rs121913254" ## chr1:g.115256530G>T in NRAS From db32e8917b577e12397378cdaef05008ee2f95be Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Mon, 27 Feb 2023 11:53:37 -0800 Subject: [PATCH 42/46] mychem: add chembl.drug_mechanisms general operations not using list_filter for more specific predicate modeling in chem->gene direction for an example of more-specific work, see https://github.com/NCATS-Tangerine/translator-api-registry/commit/5d4391abd6947f5ed27ba95e4879f0ee622b3f91 --- mychem.info/openapi_full.yml | 157 ++++++++++++++++++++++++++++++++++- 1 file changed, 153 insertions(+), 4 deletions(-) diff --git a/mychem.info/openapi_full.yml b/mychem.info/openapi_full.yml index a101424b..ac3a1286 100644 --- a/mychem.info/openapi_full.yml +++ b/mychem.info/openapi_full.yml @@ -330,6 +330,10 @@ paths: - "$ref": "#/components/x-bte-kgs-operations/chebiToReactome-rev" - "$ref": "#/components/x-bte-kgs-operations/chebiToRhea" - "$ref": "#/components/x-bte-kgs-operations/chebiToRhea-rev" + - "$ref": "#/components/x-bte-kgs-operations/drugMechChemblEnsembl" + - "$ref": "#/components/x-bte-kgs-operations/drugMechChemblEnsembl-rev" + - "$ref": "#/components/x-bte-kgs-operations/drugMechChemblUniprot" + - "$ref": "#/components/x-bte-kgs-operations/drugMechChemblUniprot-rev" - "$ref": "#/components/x-bte-kgs-operations/treatsChembl" - "$ref": "#/components/x-bte-kgs-operations/treatsChembl-rev" - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-activator" @@ -625,6 +629,29 @@ components: CHEBI: chebi.id chebiXrefs-rhea: RHEA: chebi.xrefs.rhea + drugMechChembl_EnsemblOutput: + ENSEMBL: chembl.drug_mechanisms.target_components.ensembl_gene ## no prefix + chembl_drug_action_type: chembl.drug_mechanisms.action_type + chembl_binding_site_name: chembl.drug_mechanisms.binding_site_name + reference_url: chembl.drug_mechanisms.mechanism_refs.url + reference_isbn_note: chembl.drug_mechanisms.mechanism_refs.ISBN + pubmed: chembl.drug_mechanisms.mechanism_refs.PubMed ## no prefix + output_name: chembl.drug_mechanisms.target_name + in_taxon: chembl.drug_mechanisms.target_organism + chembl_target_type: chembl.drug_mechanisms.target_type + drugMechChembl-rev: + "CHEMBL.COMPOUND": chembl.molecule_chembl_id ## no prefix + input_name: chembl.drug_mechanisms.target_name + drugMechChembl_UniprotOutput: + UniProtKB: chembl.drug_mechanisms.target_components.uniprot ## no prefix + chembl_drug_action_type: chembl.drug_mechanisms.action_type + chembl_binding_site_name: chembl.drug_mechanisms.binding_site_name + reference_url: chembl.drug_mechanisms.mechanism_refs.url + reference_isbn_note: chembl.drug_mechanisms.mechanism_refs.ISBN + pubmed: chembl.drug_mechanisms.mechanism_refs.PubMed ## no prefix + output_name: chembl.drug_mechanisms.target_name + in_taxon: chembl.drug_mechanisms.target_organism + chembl_target_type: chembl.drug_mechanisms.target_type chembl-treats: MESH: chembl.drug_indications.mesh_id ## edge attributes @@ -831,10 +858,132 @@ components: # - qInput: "RHEA:23312" ## 2 sucrose = 1(F)-beta-D-fructosylsucrose + D-glucose # oneOutput: "CHEBI:16885" ## 1-kestose / 1(F)-beta-D-fructosylsucrose ## chembl - ## - not including drug_mechanisms because it uses CHEMBL.TARGET IDs and SRI ID resolver doesn't support that yet... - ## can filter for human vs non-human targets and by target-type - ## other target_organism values: Bacteria, Human respiratory syncytial virus, Fungi, Human herpesvirus 1, Hepatitis C virus, - ## Human immunodeficiency virus 1, Varicella-zoster virus (strain Oka vaccine) (HHV-3) (Human herpesvirus 3) + ## - drug_mechanisms: + ## - can filter for human vs non-human targets and by target-type + ## - other target_organism values: Bacteria, Human respiratory syncytial virus, Fungi, Human herpesvirus 1, Hepatitis C virus, + ## Human immunodeficiency virus 1, Varicella-zoster virus (strain Oka vaccine) (HHV-3) (Human herpesvirus 3) + drugMechChemblEnsembl: + ## 60 chem/records have chembl.drug_mechanisms.target_components.ensembl_gene + - supportBatch: true + useTemplating: true + inputs: + - id: CHEMBL.COMPOUND + semantic: SmallMolecule + requestBody: + body: + q: "{{ queryInputs }}" ## no prefix + scopes: chembl.molecule_chembl_id + outputs: + - id: ENSEMBL + semantic: Gene + parameters: + ## chembl.drug_mechanisms.mechanism_refs.url will get info from: + ## ClinicalTrials, DOI, DailyMed, Expert, FDA, ISBN, IUPHAR, InterPro, KEGG, Other, + ## PMC, Patent, PubChem, Pubmed, UniProt, Wikipedia + ## chembl.drug_mechanisms.mechanism_refs.ISBN will include page number. ex: "9780702034718 PP. 164" + ## chembl.drug_mechanisms.mechanism_refs.PubMed will include only the PMID (no prefix) + fields: >- + chembl.drug_mechanisms.target_components.ensembl_gene, + chembl.drug_mechanisms.action_type, + chembl.drug_mechanisms.binding_site_name, + chembl.drug_mechanisms.mechanism_refs.url, + chembl.drug_mechanisms.mechanism_refs.ISBN, + chembl.drug_mechanisms.mechanism_refs.PubMed, + chembl.drug_mechanisms.target_name, + chembl.drug_mechanisms.target_organism, + chembl.drug_mechanisms.target_type + size: 1000 ## note size limit; added just in case + ## using the same predicate as dgidb's no-relationship-specified. + ## not using psychically_interacts_with because it's not clear that all relationships involve a physical interaction between the chem and gene product + ## not using affects because that's trickier to use with the new qualifier-modeling (can't ask for Edges without any qualifiers) + predicate: interacts_with + source: "infores:chembl" + response_mapping: + "$ref": "#/components/x-bte-response-mapping/drugMechChembl_EnsemblOutput" + # testExamples: + # - qInput: "CHEMBL.COMPOUND:CHEMBL4298198" ## VUPANORSEN SODIUM + # oneOutput: "ENSEMBL:ENSG00000132855" ## ANGPTL3 / Angiopoietin like 3 (ANGPTL3) mRNA + drugMechChemblEnsembl-rev: + - supportBatch: true + useTemplating: true + inputs: + - id: ENSEMBL + semantic: Gene + requestBody: + body: + q: "{{ queryInputs }}" ## no prefix + scopes: chembl.drug_mechanisms.target_components.ensembl_gene + outputs: + - id: CHEMBL.COMPOUND + semantic: SmallMolecule + parameters: + fields: chembl.molecule_chembl_id,chembl.drug_mechanisms.target_name ## no prefix + size: 1000 ## note size limit + predicate: interacts_with + source: "infores:chembl" + response_mapping: + "$ref": "#/components/x-bte-response-mapping/drugMechChembl-rev" + # testExamples: + # - qInput: "ENSEMBL:ENSG00000276536" ## H-Ras mRNA 5'UTR + # oneOutput: "CHEMBL.COMPOUND:CHEMBL4594562" ## ISIS-2503 + drugMechChemblUniprot: + ## 4553 chem/records have chembl.drug_mechanisms.target_components.uniprot + - supportBatch: true + useTemplating: true + inputs: + - id: CHEMBL.COMPOUND + semantic: SmallMolecule + requestBody: + body: + q: "{{ queryInputs }}" ## no prefix + scopes: chembl.molecule_chembl_id + outputs: + - id: UniProtKB + semantic: Gene + parameters: + ## see drugMechChemblEnsembl operation for more info on fields + fields: >- + chembl.drug_mechanisms.target_components.uniprot, + chembl.drug_mechanisms.action_type, + chembl.drug_mechanisms.binding_site_name, + chembl.drug_mechanisms.mechanism_refs.url, + chembl.drug_mechanisms.mechanism_refs.ISBN, + chembl.drug_mechanisms.mechanism_refs.PubMed, + chembl.drug_mechanisms.target_name, + chembl.drug_mechanisms.target_organism, + chembl.drug_mechanisms.target_type + size: 1000 ## note size limit; added just in case + ## see drugMechChemblEnsembl operation for more info on predicate + predicate: interacts_with + source: "infores:chembl" + response_mapping: + "$ref": "#/components/x-bte-response-mapping/drugMechChembl_UniprotOutput" + # testExamples: + # - qInput: "CHEMBL.COMPOUND:CHEMBL3989919" ## FOSNETUPITANT CHLORIDE HYDROCHLORIDE + # oneOutput: "UniProtKB:P25103" ## TACR1 / Neurokinin 1 receptor + drugMechChemblUniprot-rev: + - supportBatch: true + useTemplating: true + inputs: + - id: UniProtKB + semantic: Gene + requestBody: + body: + q: "{{ queryInputs }}" ## no prefix + scopes: chembl.drug_mechanisms.target_components.uniprot + outputs: + - id: CHEMBL.COMPOUND + semantic: SmallMolecule + parameters: + fields: chembl.molecule_chembl_id,chembl.drug_mechanisms.target_name ## no prefix + size: 1000 ## note size limit + predicate: interacts_with + source: "infores:chembl" + response_mapping: + "$ref": "#/components/x-bte-response-mapping/drugMechChembl-rev" + # testExamples: + # - qInput: "UniProtKB:Q16539" ## MAP kinase p38 alpha + # oneOutput: "CHEMBL.COMPOUND:CHEMBL585902" ## AMG-548 / 4(3H)-Pyrimidinone, 2-(((2S)-2-amino-3-phenylpropyl)amino)-3-methyl-5-(2-naphthalenyl)-6-(4-pyridinyl)- treatsChembl: ## all drug_indication records have a mesh ID for the indication... - supportBatch: true From fc2a207405d1c1719cb9d1ca19b79382f7d13a2e Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Wed, 1 Mar 2023 10:47:23 -0800 Subject: [PATCH 43/46] mychem for biolink 3.1.1: merge 2 drugcentral bioactivity chem->gene operations --- mychem.info/openapi_full.yml | 58 +++++++----------------------------- 1 file changed, 11 insertions(+), 47 deletions(-) diff --git a/mychem.info/openapi_full.yml b/mychem.info/openapi_full.yml index ac3a1286..e091d15b 100644 --- a/mychem.info/openapi_full.yml +++ b/mychem.info/openapi_full.yml @@ -342,8 +342,7 @@ paths: - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-antibody" - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-antisense-inhibitor" - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-binding-agent" - - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-blocker" - - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-gating-inhibitor" + - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-blockage" - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-inhibitor" - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-opener" - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-positive-allosteric-modulator" @@ -1309,25 +1308,24 @@ components: # testExamples: # - qInput: "UMLS:C2346797" ## moxetumomab pasudotox # oneOutput: "UniProtKB:P20273" ## CD22 - drugcentral-bioactivity-blocker: - ## 152 records: https://mychem.info/v1/query?q=%20_exists_:%22drugcentral.bioactivity.uniprot.uniprot_id%22%20AND%20_exists_:%22drugcentral.xrefs.umlscui%22%20AND%20drugcentral.bioactivity.action_type:%22BLOCKER%22&fields=drugcentral + drugcentral-bioactivity-blockage: + ## includes action_type = + ## - "BLOCKER", 152 records: https://mychem.info/v1/query?q=%20_exists_:%22drugcentral.bioactivity.uniprot.uniprot_id%22%20AND%20_exists_:%22drugcentral.xrefs.umlscui%22%20AND%20drugcentral.bioactivity.action_type:%22BLOCKER%22&fields=drugcentral + ## - "GATING INHIBITOR", 28 records: https://mychem.info/v1/query?q=%20_exists_:%22drugcentral.bioactivity.uniprot.uniprot_id%22%20AND%20_exists_:%22drugcentral.xrefs.umlscui%22%20AND%20drugcentral.bioactivity.action_type:%22GATING%20INHIBITOR%22&fields=drugcentral - supportBatch: true useTemplating: true inputs: - id: UMLS semantic: SmallMolecule - requestBodyType: object requestBody: - body: >- - { - "q": [ {{ queryInputs | wrap( '["' , '","BLOCKER"]') }} ], - "scopes": ["drugcentral.xrefs.umlscui", "drugcentral.bioactivity.action_type"] - } + body: + q: "{{ queryInputs }}" + scopes: drugcentral.xrefs.umlscui outputs: - id: UniProtKB semantic: Gene parameters: - list_filter: "drugcentral.bioactivity:action_type=BLOCKER" + list_filter: "drugcentral.bioactivity:action_type=BLOCKER,GATING INHIBITOR" fields: >- drugcentral.bioactivity.uniprot.uniprot_id, drugcentral.bioactivity.action_type, @@ -1345,44 +1343,10 @@ components: response_mapping: "$ref": "#/components/x-bte-response-mapping/drugcentral-bioactivity" # testExamples: + ## for BLOCKER # - qInput: "UMLS:C0242375" ## lidocaine # oneOutput: "UniProtKB:Q99250" ## SCN2A - drugcentral-bioactivity-gating-inhibitor: - ## 28 records: https://mychem.info/v1/query?q=%20_exists_:%22drugcentral.bioactivity.uniprot.uniprot_id%22%20AND%20_exists_:%22drugcentral.xrefs.umlscui%22%20AND%20drugcentral.bioactivity.action_type:%22GATING%20INHIBITOR%22&fields=drugcentral - - supportBatch: true - useTemplating: true - inputs: - - id: UMLS - semantic: SmallMolecule - requestBodyType: object - requestBody: - body: >- - { - "q": [ {{ queryInputs | wrap( '["' , '","GATING INHIBITOR"]') }} ], - "scopes": ["drugcentral.xrefs.umlscui", "drugcentral.bioactivity.action_type"] - } - outputs: - - id: UniProtKB - semantic: Gene - parameters: - list_filter: "drugcentral.bioactivity:action_type=GATING INHIBITOR" - fields: >- - drugcentral.bioactivity.uniprot.uniprot_id, - drugcentral.bioactivity.action_type, - drugcentral.bioactivity.act_source, - drugcentral.bioactivity.organism - size: 1000 ## note size limit; added just in case - ## using same predicate/qualifiers as dgidb blocker - predicate: affects - qualifiers: - qualified_predicate: causes - object_aspect_qualifier: activity - object_direction_qualifier: decreased - causal_mechanism_qualifier: molecular_channel_blockage - source: "infores:drugcentral" - response_mapping: - "$ref": "#/components/x-bte-response-mapping/drugcentral-bioactivity" - # testExamples: + ## for GATING INHIBITOR # - qInput: "UMLS:C0028066" ## nifedipine # oneOutput: "UniProtKB:Q01668" ## CACNA1D drugcentral-bioactivity-inhibitor: From c97da476ed33eb5e5cb501cf16cb57cb7006a40f Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Wed, 1 Mar 2023 11:06:37 -0800 Subject: [PATCH 44/46] mychem for biolink 3.1.1: add drugcentral-bioactivity allosteric mod and mod operation --- mychem.info/openapi_full.yml | 44 ++++++++++++++++++++++++++++++++---- 1 file changed, 40 insertions(+), 4 deletions(-) diff --git a/mychem.info/openapi_full.yml b/mychem.info/openapi_full.yml index e091d15b..677e5268 100644 --- a/mychem.info/openapi_full.yml +++ b/mychem.info/openapi_full.yml @@ -344,6 +344,7 @@ paths: - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-binding-agent" - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-blockage" - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-inhibitor" + - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-modulator" - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-opener" - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-positive-allosteric-modulator" - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-positive-modulator" @@ -1079,10 +1080,6 @@ components: ## - Common ones: "Rattus norvegicus" (765), "Mus musculus" (316), "Bos taurus" (226), Escherichia coli (156) ## - Other: Sus scrofa (56), Bacillus anthracis (13), Lactobacillus casei (11), Enterococcus faecium (2) ################################################################################################################################ - ## CAN ADD LATER? MISSING operations for the following action_type values - ## because of the partial matching, see https://github.com/biothings/mychem.info/issues/153 - ## * ALLOSTERIC MODULATOR - ## * MODULATOR drugcentral-bioactivity-activator: ## 67 records: https://mychem.info/v1/query?q=%20_exists_:%22drugcentral.bioactivity.uniprot.uniprot_id%22%20AND%20_exists_:%22drugcentral.xrefs.umlscui%22%20AND%20drugcentral.bioactivity.action_type:%22ACTIVATOR%22&fields=drugcentral - supportBatch: true @@ -1387,6 +1384,45 @@ components: # testExamples: # - qInput: "UMLS:C2703109" ## ponatinib # oneOutput: "UniProtKB:P35968" ## KDR + drugcentral-bioactivity-modulator: + ## includes action_type = + ## - ALLOSTERIC MODULATOR: <= 61 chem/records + ## - MODULATOR: <= 92 chem/records + ## not sure of the exact number of matching records, because of the partial matching issue + ## see https://github.com/biothings/mychem.info/issues/153 + - supportBatch: true + useTemplating: true + inputs: + - id: UMLS + semantic: SmallMolecule + requestBody: + body: + q: "{{ queryInputs }}" + scopes: drugcentral.xrefs.umlscui + outputs: + - id: UniProtKB + semantic: Gene + parameters: + list_filter: "drugcentral.bioactivity:action_type=ALLOSTERIC MODULATOR,MODULATOR" + fields: >- + drugcentral.bioactivity.uniprot.uniprot_id, + drugcentral.bioactivity.action_type, + drugcentral.bioactivity.act_source, + drugcentral.bioactivity.organism + size: 1000 ## note size limit; added just in case + predicate: affects + qualifiers: + object_aspect_qualifier: activity_or_abundance + source: "infores:drugcentral" + response_mapping: + "$ref": "#/components/x-bte-response-mapping/drugcentral-bioactivity" + # testExamples: + ## for ALLOSTERIC MODULATOR + # - qInput: "UMLS:C0109102" ## cervoxan + # oneOutput: "UniProtKB:P20309" ## CHRM3 + ## for MODULATOR + # - qInput: "UMLS:C4548896" ## siponimod + # oneOutput: "UniProtKB:P21453" ## S1PR1 drugcentral-bioactivity-opener: ## 15 records: https://mychem.info/v1/query?q=%20_exists_:%22drugcentral.bioactivity.uniprot.uniprot_id%22%20AND%20_exists_:%22drugcentral.xrefs.umlscui%22%20AND%20drugcentral.bioactivity.action_type:%22OPENER%22&fields=drugcentral - supportBatch: true From 738752317a2b04bf2faba3c18ef993869f0cac43 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Tue, 7 Mar 2023 22:45:41 -0800 Subject: [PATCH 45/46] biolink/monarch: add gene-disease and gene-pheno x-bte operations that automatically use gene-ortholog intermediate --- biolink/openapi.yml | 150 ++++++++++++++++++++++++++++++++++++++++++-- 1 file changed, 146 insertions(+), 4 deletions(-) diff --git a/biolink/openapi.yml b/biolink/openapi.yml index 00037fa5..33d141df 100644 --- a/biolink/openapi.yml +++ b/biolink/openapi.yml @@ -38,11 +38,9 @@ paths: ## - there are more parameters in the endpoints below. Only included parameters we're using ## - potentially interesting operation to annotate: ## - disease -> treatment: doesn't have same output format as the other endpoints... -## - function <-> gene: looks like MolecularActivity GO <-> Gene +## - function <-> gene: looks like GO terms <-> Gene (tricky Gene -> GO because no separation between the sub-ontologies bp/cc/mf) ## - bioentity/gene/{id}/expression/anatomy: same as gene/anatomy endpoint (already annotated)? -## - bioentity/gene/{id}/homologs: same as gene/anatomy endpoint (already annotated) -## - /bioentity/gene/{id}/ortholog/diseases: for non-human genes to diseases? -## - /bioentity/gene/{id}/ortholog/phenotypes: for non-human genes to phenotypes? +## - bioentity/gene/{id}/homologs: gene -> gene homologs in other species (could annotate MyGene instead?) ## - gene <-> pathway ## - ontology/shared/{subject}/{object}: ## the shared ancestry operation looks kinda interesting...but it's only for GO terms? @@ -349,6 +347,74 @@ paths: - gene x-bte-kgs-operations: - "$ref": "#/components/x-bte-kgs-operations/gene-interaction" + "/bioentity/gene/{id}/ortholog/diseases": + get: + parameters: + - name: id + description: "CURIE identifier of gene, e.g. NCBIGene:4750" + in: path + required: true + example: "HGNC:8548" + schema: + type: string + - "$ref": "#/components/parameters/rows" + - "$ref": "#/components/parameters/start" + - "$ref": "#/components/parameters/facet" + - "$ref": "#/components/parameters/facet_fields" + - "$ref": "#/components/parameters/unselect_evidence" + - "$ref": "#/components/parameters/exclude_automatic_assertions" + - "$ref": "#/components/parameters/fetch_objects" + - "$ref": "#/components/parameters/use_compact_associations" + - "$ref": "#/components/parameters/slim" + - "$ref": "#/components/parameters/evidence" + - "$ref": "#/components/parameters/direct" + - "$ref": "#/components/parameters/taxon" + - "$ref": "#/components/parameters/direct_taxon" + - "$ref": "#/components/parameters/relation" + - "$ref": "#/components/parameters/sort" + - "$ref": "#/components/parameters/q" + responses: + '200': + description: Success + summary: Returns diseases associated with orthologs of a gene + tags: + - gene + x-bte-kgs-operations: + - "$ref": "#/components/x-bte-kgs-operations/geneOrtholog-disease" + "/bioentity/gene/{id}/ortholog/phenotypes": + get: + parameters: + - name: id + description: "CURIE identifier of gene, e.g. NCBIGene:4750" + in: path + required: true + example: "HGNC:8548" + schema: + type: string + - "$ref": "#/components/parameters/rows" + - "$ref": "#/components/parameters/start" + - "$ref": "#/components/parameters/facet" + - "$ref": "#/components/parameters/facet_fields" + - "$ref": "#/components/parameters/unselect_evidence" + - "$ref": "#/components/parameters/exclude_automatic_assertions" + - "$ref": "#/components/parameters/fetch_objects" + - "$ref": "#/components/parameters/use_compact_associations" + - "$ref": "#/components/parameters/slim" + - "$ref": "#/components/parameters/evidence" + - "$ref": "#/components/parameters/direct" + - "$ref": "#/components/parameters/taxon" + - "$ref": "#/components/parameters/direct_taxon" + - "$ref": "#/components/parameters/relation" + - "$ref": "#/components/parameters/sort" + - "$ref": "#/components/parameters/q" + responses: + '200': + description: Success + summary: Returns phenotypes associated with orthologs for a gene + tags: + - gene + x-bte-kgs-operations: + - "$ref": "#/components/x-bte-kgs-operations/geneOrtholog-phenotype" "/bioentity/gene/{id}/phenotypes": get: parameters: @@ -838,6 +904,20 @@ components: monarch_source_database: associations.provided_by "biolink:original_predicate": associations.relation.label pubmed: associations.publications.id + orthologGene2diseaseMondo: + MONDO: associations.object.MONDO + homologous_gene_model_id: associations.subject.id ## what is directly annotated to the disease + homologous_gene_model_name: associations.subject.label + monarch_source_database: associations.provided_by + "biolink:original_predicate": associations.relation.label + pubmed: associations.publications.id ## not all of these are pubmed though...saw some WormBase:WBPaper ones + orthologGene2phenoHP: + HP: associations.object.HP + homologous_gene_model_id: associations.subject.id ## what is directly annotated to the disease + homologous_gene_model_name: associations.subject.label + monarch_source_database: associations.provided_by + "biolink:original_predicate": associations.relation.label + pubmed: associations.publications.id ## not all of these are pubmed though...saw some WormBase:WBPaper ones x-bte-kgs-operations: ## other useful endpoints for x-bte annotation are... ## /relation/usage/between/{subject_category}/{object_category} @@ -1125,6 +1205,68 @@ components: # - qInput: "HGNC:2950" ## DNAH5 # oneOutput: "HGNC:9069" ## PLEC ## another possible input: HGNC:7551, MYBPC3 + geneOrtholog-disease: + ## - starting with HGNC = starting with human gene, getting non-human gene orthologs + ## then finding directly-related diseases + ## finds info that isn't found through gene-phenotype direct relationships + ## - don't have a way to get information in reverse direction (Disease -> human gene through ortholog) + ## can get from Disease -> gene-ortholog + ## - noticed Wormbase-related data/homologs (C. elegans) + ## - can find more examples from /relation/usage/between/model/disease + - supportBatch: false + useTemplating: true + inputs: + - id: HGNC + semantic: Gene ## aka start with human gene + parameters: + id: "{{ queryInputs | addPrefix('HGNC') }}" + ## add prefix since Monarch expects this, while BTE automatically removes + rows: -1 + direct: true + unselect_evidence: true + ## don't need to set disease to human-only... + outputs: + - id: MONDO + semantic: Disease + ## gene -> gene ortholog -(is model of)-> disease...not sure what predicate to use + predicate: related_to + source: "infores:monarchinitiative" + response_mapping: + "$ref": "#/components/x-bte-response-mapping/orthologGene2diseaseMondo" + # testExamples: + # - qInput: "HGNC:9508" ## PSEN1 + # oneOutput: "MONDO:0006559" ## hidradenitis suppurativa, not found through gene-disease endpoints + geneOrtholog-phenotype: + ## - starting with HGNC = starting with human gene, getting non-human gene orthologs + ## then finding directly-related phenotypes + ## finds info that isn't found through gene-phenotype direct relationships + ## - don't have a way to get information in reverse direction (Phenotype -> human gene through ortholog) + ## can get from Phenotype -> gene-ortholog + ## - noticed MGI-related data/homologs + - supportBatch: false + useTemplating: true + inputs: + - id: HGNC + semantic: Gene ## aka start with human gene + parameters: + id: "{{ queryInputs | addPrefix('HGNC') }}" + ## add prefix since Monarch expects this, while BTE automatically removes + rows: -1 + direct: true + unselect_evidence: true + ## don't need to set phenotype to human-only... + outputs: + - id: HP + semantic: PhenotypicFeature + ## gene -> gene ortholog -(has phenotype)-> phenotype...not sure what predicate to use + predicate: related_to + source: "infores:monarchinitiative" + response_mapping: + "$ref": "#/components/x-bte-response-mapping/orthologGene2phenoHP" + # testExamples: + # - qInput: "HGNC:8548" ## P4HB + # oneOutput: "HP:0003540" ## Impaired platelet aggregation, not found from gene-phenotype operation + ## another possible input: HGNC:9508, PSEN1 -> HP:0009121, Abnormal axial skeleton morphology gene-phenotype: ## will include non-human phenotypes because Monarch doesn't include the taxon for phenotypes ## but prefixes show the species (MP = mouse) From ec1da25b86d84376ac171b74de01411475dc17b7 Mon Sep 17 00:00:00 2001 From: Colleen Xu Date: Thu, 9 Mar 2023 14:00:46 -0800 Subject: [PATCH 46/46] multiple apis: updating biolink-version annotation for biolink 3.1.1 --- CTD/smartapi.yaml | 2 +- ddinter/ddinter.yaml | 2 +- drug_response_kp/smartapi.yaml | 2 +- gtrx/gtrx.yaml | 2 +- multiomics_clinical_trials/smartapi.yaml | 2 +- pharmgkb/smartapi.yaml | 2 +- 6 files changed, 6 insertions(+), 6 deletions(-) diff --git a/CTD/smartapi.yaml b/CTD/smartapi.yaml index 7356554c..9e75558f 100644 --- a/CTD/smartapi.yaml +++ b/CTD/smartapi.yaml @@ -11,7 +11,7 @@ info: url: https://ctdbase.org/help/contact.go x-translator: infores: "infores:ctd" - biolink-version: "2.4.8" + biolink-version: "3.1.1" component: KP team: - Service Provider diff --git a/ddinter/ddinter.yaml b/ddinter/ddinter.yaml index ddfc7f48..d7fa84d4 100644 --- a/ddinter/ddinter.yaml +++ b/ddinter/ddinter.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.4.8" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/ddinter diff --git a/drug_response_kp/smartapi.yaml b/drug_response_kp/smartapi.yaml index 7acce9f4..f6a4b9b5 100644 --- a/drug_response_kp/smartapi.yaml +++ b/drug_response_kp/smartapi.yaml @@ -16,7 +16,7 @@ info: team: - Multiomics Provider - Service Provider - biolink-version: "2.4.8" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/biggim_drugresponse_kp diff --git a/gtrx/gtrx.yaml b/gtrx/gtrx.yaml index d3f785f7..547c39cb 100644 --- a/gtrx/gtrx.yaml +++ b/gtrx/gtrx.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.4.8" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/gtrx diff --git a/multiomics_clinical_trials/smartapi.yaml b/multiomics_clinical_trials/smartapi.yaml index 283f6cd9..97bff931 100644 --- a/multiomics_clinical_trials/smartapi.yaml +++ b/multiomics_clinical_trials/smartapi.yaml @@ -20,7 +20,7 @@ info: team: - Multiomics Provider - Service Provider - biolink-version: "2.4.8" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/multiomics_clinicaltrials_kp diff --git a/pharmgkb/smartapi.yaml b/pharmgkb/smartapi.yaml index 2785d62c..d6899c10 100644 --- a/pharmgkb/smartapi.yaml +++ b/pharmgkb/smartapi.yaml @@ -16,7 +16,7 @@ info: component: KP team: - "Service Provider" - biolink-version: "2.4.8" + biolink-version: "3.1.1" ## 31 x-bte operations total servers: - description: Production server