diff --git a/CTD/smartapi.yaml b/CTD/smartapi.yaml index e4a75bc3..8e1e56b9 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/DISEASES/smartapi.yaml b/DISEASES/smartapi.yaml index 9ed254c6..7cacb16c 100644 --- a/DISEASES/smartapi.yaml +++ b/DISEASES/smartapi.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + 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 7121fd70..ddc18270 100644 --- a/EBIgene2phenotype/smartapi.yaml +++ b/EBIgene2phenotype/smartapi.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + 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 cda3f19c..446a4ef7 100644 --- a/MGIgene2phenotype/smartapi.yaml +++ b/MGIgene2phenotype/smartapi.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + 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 d60ded9a..4a75b3a0 100644 --- a/bindingdb/smartapi.yaml +++ b/bindingdb/smartapi.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/bindingdb diff --git a/biolink/openapi.yml b/biolink/openapi.yml index e6985015..33d141df 100644 --- a/biolink/openapi.yml +++ b/biolink/openapi.yml @@ -15,7 +15,7 @@ info: team: - "Service Provider" - "Standards Reference Implementation Team" - biolink-version: "2.2.13" + 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 5053fa55..bc298dcd 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: "3.1.1" 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 8d0411a2..f7a114bf 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: "2.2.13" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/bioplanet_pathway_gene diff --git a/biothings_explorer/qualifier-sri-test-service.json b/biothings_explorer/qualifier-sri-test-service.json new file mode 100644 index 00000000..9d6dba30 --- /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_id": "CHEMBL.COMPOUND:CHEMBL266510", + "subject_name": "FLINDOKALNER", + "predicate": "biolink:affects", + "object_category": "biolink:Gene", + "object_id": "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_id": "GO:0090272", + "subject_name": "negative regulation of fibroblast growth factor production", + "predicate": "biolink:regulates", + "object_category": "biolink:BiologicalProcess", + "object_id": "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_id": "CHEBI:3215", + "subject_name": "bupivacaine", + "predicate": "biolink:affects", + "object_category": "biolink:Gene", + "object_id": "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" + } + ] + } + ] +} diff --git a/biothings_explorer/service-provider-trapi.yaml b/biothings_explorer/service-provider-trapi.yaml index d615be03..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: 2.4.8 + biolink-version: "3.1.1" component: KP team: - Service Provider diff --git a/biothings_explorer/smartapi.yaml b/biothings_explorer/smartapi.yaml index 9afcfc92..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: 2.4.8 + biolink-version: "3.1.1" component: ARA team: - Exploring Agent 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/dgidb/openapi.yml b/dgidb/openapi.yml index a29880dc..6dce54a3 100644 --- a/dgidb/openapi.yml +++ b/dgidb/openapi.yml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/dgidb @@ -647,10 +647,15 @@ 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 2.4.8: used entity_positively_regulates_entity + 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: activation ## extra since DGIdb labels these as "activator" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -678,10 +683,13 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:activator and CHEMBL.MECHANISM:activator map to the mixin positively_regulates (under regulates) - ## vs GAMMA:activator maps to increases_activity_of (under affects) - ## CX decided to use the entity-entity version of positively_regulates, after reading some triples' linked pubmed papers - predicate: entity_positively_regulated_by_entity + ## biolink 2.4.8: used entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity + subject_direction_qualifier: increased + causal_mechanism_qualifier: activation ## extra since DGIdb labels these as "activator" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -711,8 +719,13 @@ components: outputs: - id: NCBIGene semantic: Gene - ## for biolink 2.2.8, DGIdb:agonist maps to this predicate - predicate: increases_activity_of + ## for biolink 2.4.8, DGIdb:agonist maps to increases_activity_of + predicate: affects + qualifiers: + 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: "$ref": "#/components/x-bte-response-mapping/forward" @@ -743,8 +756,13 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:agonist maps to the inverse of this predicate - predicate: activity_increased_by + ## for biolink 2.4.8, DGIdb:agonist maps to the inverse of increases_activity_of + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity + subject_direction_qualifier: increased + causal_mechanism_qualifier: agonism ## extra since DGIdb labels these as "agonist" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -774,8 +792,11 @@ components: outputs: - id: NCBIGene semantic: Gene - ## for biolink 2.2.8, DGIdb:allosteric_modulator maps to this predicate - predicate: affects_activity_of + ## for biolink 2.4.8, 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: "$ref": "#/components/x-bte-response-mapping/forward" @@ -803,8 +824,11 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:allosteric_modulator maps to the inverse of this predicate - predicate: activity_affected_by + ## for biolink 2.4.8, DGIdb:allosteric_modulator maps to the inverse of affects_activity_of + predicate: affected_by + qualifiers: + subject_aspect_qualifier: activity + ## no causal_mechanism_qualifier for "allosteric modulator" (not negative or positive) source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -834,15 +858,13 @@ 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 - ## "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 + ## for biolink 2.4.8, 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" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -872,8 +894,13 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:antagonist maps to the inverse of this predicate - predicate: activity_decreased_by + ## for biolink 2.4.8, DGIdb:antagonist maps to the inverse of decreases_activity_of + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity + subject_direction_qualifier: decreased + causal_mechanism_qualifier: antagonism ## extra since DGIdb labels these as "antagonist" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -903,8 +930,10 @@ 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: physically_interacts_with + qualifiers: + causal_mechanism_qualifier: antibody_inhibition ## extra since DGIdb labels these as "antibody" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -932,8 +961,10 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## biolink 2.2.8: using the mapping for GAMMA:antibody, rather than mapping for the relation (molecularly_interacts_with) - predicate: directly_interacts_with + ## for biolink 2.4.8, was using directly_interacts_with (mapping for GAMMA:antibody) + predicate: physically_interacts_with + qualifiers: + causal_mechanism_qualifier: antibody_inhibition ## extra since DGIdb labels these as "antibody" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -964,8 +995,13 @@ components: # outputs: # - id: NCBIGene # semantic: Gene - # ## for biolink 2.2.8, DGIdb:antisense_oligonucleotide maps to this predicate - # predicate: decreases_expression_of + # ## for biolink 2.4.8, 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: # "$ref": "#/components/x-bte-response-mapping/forward" @@ -993,8 +1029,13 @@ components: # outputs: # - id: "CHEMBL.COMPOUND" # semantic: SmallMolecule - # ## for biolink 2.2.8, DGIdb:antisense_oligonucleotide maps to the inverse of this predicate - # predicate: expression_decreased_by + # ## for biolink 2.4.8, DGIdb:antisense_oligonucleotide maps to the inverse of decreases_expression_of + # ## but dgidb definition is: translation from mRNA to protein is inhibited.. + # predicate: affected_by + # qualifiers: + # qualified_predicate: caused_by + # subject_aspect_qualifier: synthesis + # subject_direction_qualifier: decreased # source: "infores:dgidb" # response_mapping: # "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1024,10 +1065,14 @@ 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: - ## for biolink 2.2.8, DGIdb:blocker maps to this predicate - predicate: decreases_activity_of + ## 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 source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -1058,8 +1103,13 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:blocker maps to the inverse of this predicate - predicate: activity_decreased_by + ## for biolink 2.4.8, DGIdb:blocker maps to the inverse of decreases_activity_of + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity + subject_direction_qualifier: decreased + causal_mechanism_qualifier: molecular_channel_blockage source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1090,8 +1140,14 @@ components: # outputs: # - id: NCBIGene # semantic: Gene - # ## for biolink 2.2.8, DGIdb:inducer maps to this predicate - # predicate: increases_activity_of + # ## for biolink 2.4.8, DGIdb:inducer maps to increases_activity_of + # predicate: affects + # ## dgidb definition doesn't match biolink 3.0.3's inducer definition + # ## so not using that causal_mechanism_qualifier + # qualifiers: + # qualified_predicate: causes + # object_aspect_qualifier: activity + # object_direction_qualifier: increased # source: "infores:dgidb" # response_mapping: # "$ref": "#/components/x-bte-response-mapping/forward" @@ -1119,8 +1175,12 @@ components: # outputs: # - id: "CHEMBL.COMPOUND" # semantic: SmallMolecule - # ## for biolink 2.2.8, DGIdb:inducer maps to the inverse of this predicate - # predicate: activity_increased_by + # ## for biolink 2.4.8, DGIdb:inducer maps to the inverse of increases_activity_of + # predicate: affected_by + # qualifiers: + # qualified_predicate: caused_by + # subject_aspect_qualifier: activity + # subject_direction_qualifier: increased # source: "infores:dgidb" # response_mapping: # "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1150,8 +1210,14 @@ components: outputs: - id: NCBIGene semantic: Gene - ## for biolink 2.2.8, DGIdb:inhibitor maps to this predicate - predicate: decreases_activity_of + ## 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_or_abundance + object_direction_qualifier: decreased + causal_mechanism_qualifier: inhibition ## extra since DGIdb labels these as "inhibitor" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -1179,8 +1245,14 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:inhibitor maps to the inverse of this predicate - predicate: activity_decreased_by + ## for biolink 2.4.8, DGIdb:inhibitor maps to the inverse of decreases_activity_of + predicate: affected_by + ## uses activity_or_abundance because dgidb definition says decrease of expression or activity + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: decreased + causal_mechanism_qualifier: inhibition ## extra since DGIdb labels these as "inhibitor" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1211,8 +1283,13 @@ 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 2.4.8, 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: # "$ref": "#/components/x-bte-response-mapping/forward" @@ -1240,8 +1317,13 @@ components: # outputs: # - id: "CHEMBL.COMPOUND" # semantic: SmallMolecule - # ## for biolink 2.2.8, DGIdb:inhibitory_allosteric_modulator maps to the inverse of this predicate - # predicate: activity_decreased_by + # ## for biolink 2.4.8, DGIdb:inhibitory_allosteric_modulator maps to the inverse of decreases_activity_of + # predicate: affected_by + # qualifiers: + # qualified_predicate: caused_by + # subject_aspect_qualifier: activity + # subject_direction_qualifier: decreased + # causal_mechanism_qualifier: negative_allosteric_modulation ## extra # source: "infores:dgidb" # response_mapping: # "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1271,8 +1353,13 @@ components: outputs: - id: NCBIGene semantic: Gene - ## for biolink 2.2.8, DGIdb:inverse_agonist maps to this predicate - predicate: decreases_activity_of + ## for biolink 2.4.8, 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: "$ref": "#/components/x-bte-response-mapping/forward" @@ -1300,8 +1387,13 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:inverse_agonist maps to the inverse of this predicate - predicate: activity_decreased_by + ## for biolink 2.4.8, DGIdb:inverse_agonist maps to the inverse of decreases_activity_of + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity + subject_direction_qualifier: decreased + causal_mechanism_qualifier: inverse_agonism source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1332,8 +1424,12 @@ 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 2.4.8, 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_or_abundance + ## no causal_mechanism_qualifier for "modulator" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -1361,8 +1457,11 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:modulator maps to the inverse of this predicate - predicate: activity_affected_by + ## for biolink 2.4.8, DGIdb:modulator maps to the inverse of affects_activity_of + predicate: affected_by + qualifiers: + subject_aspect_qualifier: activity_or_abundance + ## no causal_mechanism_qualifier for "modulator" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1393,8 +1492,14 @@ components: # outputs: # - id: NCBIGene # semantic: Gene - # ## for biolink 2.2.8, DGIdb:negative_modulator maps to this predicate - # predicate: decreases_activity_of + # ## for biolink 2.4.8, 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_or_abundance + # object_direction_qualifier: decreased + # ## no causal_mechanism_qualifier for "negative modulator" # source: "infores:dgidb" # response_mapping: # "$ref": "#/components/x-bte-response-mapping/forward" @@ -1422,8 +1527,13 @@ components: # outputs: # - id: "CHEMBL.COMPOUND" # semantic: SmallMolecule - # ## for biolink 2.2.8, DGIdb:negative_modulator maps to the inverse of this predicate - # predicate: activity_decreased_by + # ## for biolink 2.4.8, DGIdb:negative_modulator maps to the inverse of decreases_activity_of + # predicate: affected_by + # qualifiers: + # qualified_predicate: caused_by + # subject_aspect_qualifier: activity_or_abundance + # subject_direction_qualifier: decreased + # ## no causal_mechanism_qualifier for "negative modulator" # source: "infores:dgidb" # response_mapping: # "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1454,7 +1564,6 @@ components: outputs: - id: NCBIGene semantic: Gene - ## DGIdb drug-gene interactions predicate: interacts_with source: "infores:dgidb" response_mapping: @@ -1483,7 +1592,6 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## DGIdb drug-gene interactions predicate: interacts_with source: "infores:dgidb" response_mapping: @@ -1514,8 +1622,13 @@ components: outputs: - id: NCBIGene semantic: Gene - ## for biolink 2.2.8, DGIdb:partial_agonist maps to this predicate - predicate: increases_activity_of + ## for biolink 2.4.8, DGIdb:partial_agonist maps to increases_activity_of + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity + object_direction_qualifier: increased + causal_mechanism_qualifier: agonism source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -1543,8 +1656,13 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## for biolink 2.2.8, DGIdb:partial_agonist maps to the inverse of this predicate - predicate: activity_increased_by + ## for biolink 2.4.8, DGIdb:partial_agonist maps to the inverse of increases_activity_of + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity + subject_direction_qualifier: increased + causal_mechanism_qualifier: agonism source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1574,8 +1692,14 @@ components: outputs: - id: NCBIGene semantic: Gene - ## biolink 2.2.8: using mapping to GAMMA / CHEMBL.MECHANISM positive_modulator term - predicate: increases_activity_of + ## biolink 2.4.8: 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 + object_direction_qualifier: increased + ## no causal_mechanism_qualifier for "positive modulator" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/forward" @@ -1603,8 +1727,13 @@ components: outputs: - id: "CHEMBL.COMPOUND" semantic: SmallMolecule - ## biolink 2.2.8: using inverse of mapping to GAMMA / CHEMBL.MECHANISM positive_modulator term - predicate: activity_increased_by + ## biolink 2.4.8: using inverse of mapping to GAMMA / CHEMBL.MECHANISM positive_modulator term (activity_increased_by) + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity + subject_direction_qualifier: increased + ## no causal_mechanism_qualifier for "positive modulator" source: "infores:dgidb" response_mapping: "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1635,8 +1764,14 @@ components: # outputs: # - id: NCBIGene # semantic: Gene - # ## biolink 2.2.8: using mapping for GAMMA:suppressor - # predicate: decreases_activity_of + # ## 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_or_abundance + # object_direction_qualifier: decreased + # ## no causal_mechanism_qualifier for "suppressor" # source: "infores:dgidb" # response_mapping: # "$ref": "#/components/x-bte-response-mapping/forward" @@ -1664,8 +1799,13 @@ components: # outputs: # - id: "CHEMBL.COMPOUND" # semantic: SmallMolecule - # ## biolink 2.2.8: using inverse of mapping for GAMMA:suppressor - # predicate: activity_decreased_by + # ## biolink 2.4.8: using inverse of mapping for GAMMA:suppressor (so using activity_decreased_by) + # predicate: affected_by + # qualifiers: + # qualified_predicate: caused_by + # subject_aspect_qualifier: activity_or_abundance + # subject_direction_qualifier: decreased + # ## no causal_mechanism_qualifier for "suppressor" # source: "infores:dgidb" # response_mapping: # "$ref": "#/components/x-bte-response-mapping/reverse" @@ -1696,8 +1836,8 @@ components: # outputs: # - id: NCBIGene # semantic: Gene - # ## using a different predicate than the biolink 2.2.8 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 + # ## 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" # response_mapping: @@ -1726,8 +1866,6 @@ components: # outputs: # - id: "CHEMBL.COMPOUND" # semantic: SmallMolecule - # ## using a different predicate than the biolink 2.2.8 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" # response_mapping: 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/ebi_proteins/openapi.yml b/ebi_proteins/openapi.yml index b4a99d44..613e069a 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: "3.1.1" 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 df2c47bc..33dfd99a 100644 --- a/go_bp/smartapi.yaml +++ b/go_bp/smartapi.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/go_bp @@ -639,7 +639,12 @@ 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' @@ -647,27 +652,32 @@ 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 @@ -684,7 +694,12 @@ 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' @@ -706,7 +721,12 @@ 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' @@ -729,7 +749,9 @@ 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' @@ -751,7 +773,9 @@ 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' diff --git a/go_cc/smartapi.yaml b/go_cc/smartapi.yaml index 0c2562df..9eb6e9bd 100644 --- a/go_cc/smartapi.yaml +++ b/go_cc/smartapi.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + 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 5e4f7002..c2548d5a 100644 --- a/go_mf/smartapi.yaml +++ b/go_mf/smartapi.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/go_mf 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/hpo/smartapi.yaml b/hpo/smartapi.yaml index e692d34c..a7164062 100644 --- a/hpo/smartapi.yaml +++ b/hpo/smartapi.yaml @@ -15,7 +15,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + 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 bd9f356d..edb840a2 100644 --- a/idisk/smartapi.yaml +++ b/idisk/smartapi.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/idisk @@ -603,7 +603,8 @@ 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 @@ -631,7 +632,7 @@ 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' @@ -662,7 +663,8 @@ 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 @@ -690,7 +692,7 @@ 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: $ref: '#/components/x-bte-response-mapping/rev' diff --git a/litvar/smartapi.yaml b/litvar/smartapi.yaml index 5219424c..491a8a26 100644 --- a/litvar/smartapi.yaml +++ b/litvar/smartapi.yaml @@ -18,7 +18,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.1.1" servers: - url: https://www.ncbi.nlm.nih.gov/research/bionlp/litvar/api/v1 description: Production server diff --git a/multiomics_clinical_trials/smartapi.yaml b/multiomics_clinical_trials/smartapi.yaml index 283f6cd9..97bff931 100644 --- a/multiomics_clinical_trials/smartapi.yaml +++ b/multiomics_clinical_trials/smartapi.yaml @@ -20,7 +20,7 @@ info: team: - Multiomics Provider - Service Provider - biolink-version: "2.4.8" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/multiomics_clinicaltrials_kp diff --git a/mychem.info/openapi_full.yml b/mychem.info/openapi_full.yml index 4d00a2a6..70876562 100644 --- a/mychem.info/openapi_full.yml +++ b/mychem.info/openapi_full.yml @@ -15,7 +15,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.4.8" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://mychem.info/v1 @@ -337,11 +337,17 @@ paths: - "$ref": "#/components/x-bte-kgs-operations/treatsChembl" - "$ref": "#/components/x-bte-kgs-operations/treatsChembl-rev" - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-activator" - - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-increases-activity" - - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-decreases-activity" - - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-physically-interacts" + - "$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" + - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-blockage" + - "$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" - "$ref": "#/components/x-bte-kgs-operations/drugcentral-bioactivity-rev" - "$ref": "#/components/x-bte-kgs-operations/drugcentral-contraindication" - "$ref": "#/components/x-bte-kgs-operations/drugcentral-contraindication-rev" @@ -797,7 +803,7 @@ components: parameters: fields: chebi.id size: 1000 ## note size limit - predicate: has_participant + predicate: has_participant source: "infores:chebi" response_mapping: "$ref": "#/components/x-bte-response-mapping/chebi" @@ -1101,143 +1107,135 @@ components: drugcentral.bioactivity.act_source, drugcentral.bioactivity.organism size: 1000 ## note size limit; added just in case - ## using same predicate as dgidb activator - predicate: entity_positively_regulates_entity + ## 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-increases-activity: - ## includes action_type = - ## - "AGONIST", 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 - ## - "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 - ## - "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 - ## - "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 - ## TEMPORARY, WILL NEED TO EXPLICITLY ADD LATER: - ## - "PARTIAL AGONIST", 14 records. See https://github.com/biothings/mychem.info/issues/153 + 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 }}" - scopes: drugcentral.xrefs.umlscui + body: >- + { + "q": [ {{ queryInputs | wrap( '["' , '","AGONIST"]') }} ], + "scopes": ["drugcentral.xrefs.umlscui", "drugcentral.bioactivity.action_type"] + } outputs: - id: UniProtKB semantic: Gene parameters: - list_filter: "drugcentral.bioactivity:action_type=AGONIST,OPENER,POSITIVE ALLOSTERIC MODULATOR,POSITIVE MODULATOR" + 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 as dgidb agonist, dgidb "positive modulator" - ## in biolink 2.4.8, this predicate maps to GAMMA:opener and CHEMBL.MECHANISM:opener - predicate: increases_activity_of + ## 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: - ## for AGONIST # - qInput: "UMLS:C0030071" ## oxymetazoline # oneOutput: "UniProtKB:P35348" ## ADRA1A - ## for OPENER - # - qInput: "UMLS:C3265565" ## sevoflurane - # oneOutput: "UniProtKB:O95069" ## KCNK2 - ## for POSITIVE ALLOSTERIC MODULATOR - # - qInput: "UMLS:C0072828" ## quazepam - # oneOutput: "UniProtKB:P18505" ## GABRA3 - ## for POSITIVE MODULATOR - # - qInput: "UMLS:C4256131" ## enflurane - # oneOutput: "UniProtKB:P23415" ## GLRA1 - drugcentral-bioactivity-decreases-activity: - ## includes action_type = - ## - "ANTAGONIST", 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 - ## - "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 - ## - "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 - ## TEMPORARY, WILL NEED TO EXPLICITLY ADD LATER: - ## - "ALLOSTERIC ANTAGONIST", 1 chem / 6+ genes. See https://github.com/biothings/mychem.info/issues/153 + 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 }}" - scopes: drugcentral.xrefs.umlscui + 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,BLOCKER,GATING INHIBITOR,INHIBITOR" + 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 as dgidb antagonist, dgidb blocker, dgidb inhibitor - predicate: decreases_activity_of + ## 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: - ## for ANTAGONIST # - qInput: "UMLS:C0724441" ## yohimbine # oneOutput: "UniProtKB:P41595" ## HTR2B - ## for BLOCKER - # - qInput: "UMLS:C0242375" ## lidocaine - # oneOutput: "UniProtKB:Q99250" ## SCN2A - ## for GATING INHIBITOR - # - qInput: "UMLS:C0028066" ## nifedipine - # oneOutput: "UniProtKB:Q01668" ## CACNA1D - ## for INHIBITOR - # - qInput: "UMLS:C2703109" ## ponatinib - # oneOutput: "UniProtKB:P35968" ## KDR - drugcentral-bioactivity-physically-interacts: - ## includes action_type = - ## - "ANTIBODY BINDING", 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 - ## - "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 + 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 }}" - scopes: drugcentral.xrefs.umlscui + 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,BINDING AGENT" + 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 as biolink3 version of this operation + ## 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 + qualifiers: + causal_mechanism_qualifier: antibody_inhibition source: "infores:drugcentral" response_mapping: "$ref": "#/components/x-bte-response-mapping/drugcentral-bioactivity" # testExamples: - ## for ANTIBODY BINDING # - qInput: "UMLS:C1172734" ## natalizumab # oneOutput: "UniProtKB:P05556" ## ITGA4 - ## for BINDING AGENT - # - qInput: "UMLS:C2346797" ## moxetumomab pasudotox - # oneOutput: "UniProtKB:P20273" ## CD22 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 @@ -1263,14 +1261,129 @@ components: drugcentral.bioactivity.act_source, drugcentral.bioactivity.organism size: 1000 ## note size limit; added just in case - ## using same predicate as dgidb antisense oligonucleotide (commented-out operation) - predicate: decreases_expression_of + ## 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-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 + requestBody: + body: + q: "{{ queryInputs }}" + scopes: drugcentral.xrefs.umlscui + outputs: + - id: UniProtKB + semantic: Gene + parameters: + list_filter: "drugcentral.bioactivity:action_type=BLOCKER,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: + "$ref": "#/components/x-bte-response-mapping/drugcentral-bioactivity" + # testExamples: + ## for BLOCKER + # - qInput: "UMLS:C0242375" ## lidocaine + # oneOutput: "UniProtKB:Q99250" ## SCN2A + ## for GATING INHIBITOR + # - qInput: "UMLS:C0028066" ## nifedipine + # oneOutput: "UniProtKB:Q01668" ## CACNA1D + drugcentral-bioactivity-inhibitor: + ## 793 records: https://mychem.info/v1/query?q=%20_exists_:%22drugcentral.bioactivity.uniprot.uniprot_id%22%20AND%20_exists_:%22drugcentral.xrefs.umlscui%22%20AND%20drugcentral.bioactivity.action_type:%22INHIBITOR%22&fields=drugcentral + - supportBatch: true + useTemplating: true + inputs: + - id: UMLS + semantic: SmallMolecule + requestBodyType: object + requestBody: + body: >- + { + "q": [ {{ queryInputs | wrap( '["' , '","INHIBITOR"]') }} ], + "scopes": ["drugcentral.xrefs.umlscui", "drugcentral.bioactivity.action_type"] + } + outputs: + - id: UniProtKB + semantic: Gene + parameters: + list_filter: "drugcentral.bioactivity:action_type=INHIBITOR" + fields: >- + drugcentral.bioactivity.uniprot.uniprot_id, + drugcentral.bioactivity.action_type, + drugcentral.bioactivity.act_source, + drugcentral.bioactivity.organism + size: 1000 ## note size limit; added just in case + ## using same predicate/qualifiers as dgidb inhibitor + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: decreased + causal_mechanism_qualifier: inhibition + source: "infores:drugcentral" + response_mapping: + "$ref": "#/components/x-bte-response-mapping/drugcentral-bioactivity" + # testExamples: + # - qInput: "UMLS:C2703109" ## ponatinib + # oneOutput: "UniProtKB:P35968" ## KDR drugcentral-bioactivity-modulator: ## includes action_type = ## - ALLOSTERIC MODULATOR: <= 61 chem/records @@ -1297,7 +1410,9 @@ components: drugcentral.bioactivity.act_source, drugcentral.bioactivity.organism size: 1000 ## note size limit; added just in case - predicate: affects_activity_of + predicate: affects + qualifiers: + object_aspect_qualifier: activity_or_abundance source: "infores:drugcentral" response_mapping: "$ref": "#/components/x-bte-response-mapping/drugcentral-bioactivity" @@ -1308,6 +1423,119 @@ components: ## for MODULATOR # - qInput: "UMLS:C4548896" ## siponimod # oneOutput: "UniProtKB:P21453" ## S1PR1 + drugcentral-bioactivity-opener: + ## 15 records: https://mychem.info/v1/query?q=%20_exists_:%22drugcentral.bioactivity.uniprot.uniprot_id%22%20AND%20_exists_:%22drugcentral.xrefs.umlscui%22%20AND%20drugcentral.bioactivity.action_type:%22OPENER%22&fields=drugcentral + - supportBatch: true + useTemplating: true + inputs: + - id: UMLS + semantic: SmallMolecule + requestBodyType: object + requestBody: + body: >- + { + "q": [ {{ queryInputs | wrap( '["' , '","OPENER"]') }} ], + "scopes": ["drugcentral.xrefs.umlscui", "drugcentral.bioactivity.action_type"] + } + outputs: + - id: UniProtKB + semantic: Gene + parameters: + list_filter: "drugcentral.bioactivity:action_type=OPENER" + fields: >- + drugcentral.bioactivity.uniprot.uniprot_id, + drugcentral.bioactivity.action_type, + drugcentral.bioactivity.act_source, + drugcentral.bioactivity.organism + size: 1000 ## note size limit; added just in case + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity + object_direction_qualifier: increased + causal_mechanism_qualifier: molecular_channel_opening + source: "infores:drugcentral" + response_mapping: + "$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 @@ -1523,7 +1751,8 @@ 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: @@ -1547,7 +1776,7 @@ 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: diff --git a/mydisease.info/smartapi.yaml b/mydisease.info/smartapi.yaml index 9e256f2e..8534739e 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: "3.1.1" 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 6b2406cb..33944718 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 757e10c6..d1194b8c 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: "2.2.8" + 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 489c4f11..2e99f7f7 100644 --- a/ols/smartapi.yaml +++ b/ols/smartapi.yaml @@ -19,7 +19,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + 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 5faa3dc6..e00c02f2 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: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/pfocr 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 diff --git a/quickgo/smartapi.yaml b/quickgo/smartapi.yaml index 53048ad9..84cfc2b2 100644 --- a/quickgo/smartapi.yaml +++ b/quickgo/smartapi.yaml @@ -19,7 +19,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + 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 f8a0b731..b9520313 100644 --- a/rhea/smartapi.yaml +++ b/rhea/smartapi.yaml @@ -15,7 +15,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/rhea diff --git a/semmeddb/AutoGen_SEMMEDDB.ipynb b/semmeddb/AutoGen_SEMMEDDB.ipynb index addd7922..1e417ac1 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 +41,13 @@ "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 [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", "* 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 +57,8 @@ "id": "a5ee5aac", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:23:41.784903Z", - "start_time": "2022-08-17T04:23:33.456195Z" + "end_time": "2022-12-08T22:26:12.014583Z", + "start_time": "2022-12-08T22:26:10.555122Z" } }, "outputs": [], @@ -88,6 +88,7 @@ "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 +101,8 @@ "id": "73408978", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:26:02.819523Z", - "start_time": "2022-08-17T04:24:49.607101Z" + "end_time": "2022-12-08T22:27:31.344555Z", + "start_time": "2022-12-08T22:26:14.649813Z" } }, "outputs": [], @@ -122,8 +123,8 @@ "id": "e8150ed6", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:26:26.036753Z", - "start_time": "2022-08-17T04:26:26.027904Z" + "end_time": "2022-12-08T22:27:38.378852Z", + "start_time": "2022-12-08T22:27:38.369470Z" } }, "outputs": [ @@ -148,8 +149,8 @@ "id": "57d2dc4a", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:26:27.441331Z", - "start_time": "2022-08-17T04:26:27.430908Z" + "end_time": "2022-12-08T22:27:39.105739Z", + "start_time": "2022-12-08T22:27:39.092974Z" } }, "outputs": [ @@ -276,8 +277,8 @@ "id": "6c362bfe", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:26:43.290197Z", - "start_time": "2022-08-17T04:26:36.687460Z" + "end_time": "2022-12-08T22:27:50.049872Z", + "start_time": "2022-12-08T22:27:43.085786Z" } }, "outputs": [], @@ -292,8 +293,8 @@ "id": "68a11e89", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:26:44.941523Z", - "start_time": "2022-08-17T04:26:44.938042Z" + "end_time": "2022-12-08T22:28:00.166351Z", + "start_time": "2022-12-08T22:28:00.162811Z" } }, "outputs": [ @@ -318,8 +319,8 @@ "id": "9abae6d5", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:26:47.883151Z", - "start_time": "2022-08-17T04:26:46.301384Z" + "end_time": "2022-12-08T22:28:02.938866Z", + "start_time": "2022-12-08T22:28:01.232942Z" } }, "outputs": [], @@ -344,8 +345,8 @@ "id": "67a2db8e", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:26:59.496585Z", - "start_time": "2022-08-17T04:26:51.694553Z" + "end_time": "2022-12-08T22:28:14.084011Z", + "start_time": "2022-12-08T22:28:05.850640Z" } }, "outputs": [ @@ -422,8 +423,8 @@ "id": "69d37a01", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:27:09.288407Z", - "start_time": "2022-08-17T04:27:09.283371Z" + "end_time": "2022-12-08T22:28:17.650088Z", + "start_time": "2022-12-08T22:28:17.644954Z" } }, "outputs": [ @@ -582,8 +583,8 @@ "id": "26561f10", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:27:19.930826Z", - "start_time": "2022-08-17T04:27:14.342508Z" + "end_time": "2022-12-08T22:28:25.133876Z", + "start_time": "2022-12-08T22:28:20.295431Z" } }, "outputs": [], @@ -601,8 +602,8 @@ "id": "1f18986e", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:27:29.380363Z", - "start_time": "2022-08-17T04:27:21.424565Z" + "end_time": "2022-12-08T22:28:40.001151Z", + "start_time": "2022-12-08T22:28:31.960526Z" } }, "outputs": [ @@ -662,8 +663,8 @@ "id": "09163f4e", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:27:31.713323Z", - "start_time": "2022-08-17T04:27:31.709387Z" + "end_time": "2022-12-08T22:28:45.652826Z", + "start_time": "2022-12-08T22:28:45.648244Z" } }, "outputs": [ @@ -770,8 +771,8 @@ "id": "dec1bcc5", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:27:49.545664Z", - "start_time": "2022-08-17T04:27:49.542085Z" + "end_time": "2022-12-08T22:28:49.653474Z", + "start_time": "2022-12-08T22:28:49.649724Z" } }, "outputs": [], @@ -797,8 +798,8 @@ "id": "0ab643b0", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:28:07.147311Z", - "start_time": "2022-08-17T04:27:51.218284Z" + "end_time": "2022-12-08T22:29:07.183339Z", + "start_time": "2022-12-08T22:28:51.786401Z" } }, "outputs": [], @@ -813,7 +814,7 @@ "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 +823,8 @@ "id": "b6244458", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:28:17.646401Z", - "start_time": "2022-08-17T04:28:10.572350Z" + "end_time": "2022-12-08T22:29:18.130324Z", + "start_time": "2022-12-08T22:29:10.476669Z" } }, "outputs": [ @@ -883,8 +884,8 @@ "id": "4184a17f", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:30:18.135800Z", - "start_time": "2022-08-17T04:30:06.277580Z" + "end_time": "2022-12-08T22:29:35.017003Z", + "start_time": "2022-12-08T22:29:22.073191Z" } }, "outputs": [], @@ -898,8 +899,8 @@ "id": "24036b97", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:30:18.876230Z", - "start_time": "2022-08-17T04:30:18.872986Z" + "end_time": "2022-12-08T22:31:25.117546Z", + "start_time": "2022-12-08T22:31:25.113877Z" } }, "outputs": [ @@ -935,8 +936,9 @@ "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 +956,8 @@ "id": "8d1bbf26", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:30:34.412350Z", - "start_time": "2022-08-17T04:30:34.409783Z" + "end_time": "2022-12-08T22:31:27.948176Z", + "start_time": "2022-12-08T22:31:27.945524Z" } }, "outputs": [], @@ -970,8 +972,8 @@ "id": "8f859145", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:30:35.669572Z", - "start_time": "2022-08-17T04:30:35.655261Z" + "end_time": "2022-12-08T22:31:28.676587Z", + "start_time": "2022-12-08T22:31:28.662255Z" } }, "outputs": [], @@ -995,8 +997,8 @@ "id": "d470fa70", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:30:36.725470Z", - "start_time": "2022-08-17T04:30:36.715781Z" + "end_time": "2022-12-08T22:31:29.196071Z", + "start_time": "2022-12-08T22:31:29.185990Z" } }, "outputs": [ @@ -1098,8 +1100,8 @@ "id": "89c14528", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:30:45.498716Z", - "start_time": "2022-08-17T04:30:45.487607Z" + "end_time": "2022-12-08T22:31:32.542981Z", + "start_time": "2022-12-08T22:31:32.531357Z" } }, "outputs": [ @@ -1243,8 +1245,8 @@ "id": "8c8c04ce", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:30:52.074136Z", - "start_time": "2022-08-17T04:30:52.068772Z" + "end_time": "2022-12-08T22:31:34.577172Z", + "start_time": "2022-12-08T22:31:34.571473Z" } }, "outputs": [ @@ -1324,8 +1326,8 @@ "id": "0400e8e3", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:31:03.058300Z", - "start_time": "2022-08-17T04:31:03.052573Z" + "end_time": "2022-12-08T22:31:37.768680Z", + "start_time": "2022-12-08T22:31:37.762786Z" } }, "outputs": [], @@ -1357,8 +1359,8 @@ "id": "683a1f47", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:31:04.361830Z", - "start_time": "2022-08-17T04:31:04.353180Z" + "end_time": "2022-12-08T22:31:39.478491Z", + "start_time": "2022-12-08T22:31:39.469562Z" } }, "outputs": [ @@ -1500,28 +1502,28 @@ }, { "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": "2022-12-08T22:31:54.652582Z", + "start_time": "2022-12-08T22:31:50.616115Z" } }, "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 3.1.1\n", + "bmt_tool = Toolkit('https://raw.githubusercontent.com/biolink/biolink-model/v3.1.1/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": "2022-12-08T22:31:57.948166Z", + "start_time": "2022-12-08T22:31:57.708301Z" } }, "outputs": [ @@ -1531,7 +1533,7 @@ "'Small Molecule'" ] }, - "execution_count": 30, + "execution_count": 26, "metadata": {}, "output_type": "execute_result" } @@ -1542,12 +1544,12 @@ }, { "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": "2022-12-08T22:32:06.494801Z", + "start_time": "2022-12-08T22:32:06.483991Z" } }, "outputs": [], @@ -1562,12 +1564,12 @@ }, { "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": "2022-12-08T22:32:07.913079Z", + "start_time": "2022-12-08T22:32:07.904321Z" } }, "outputs": [ @@ -1667,7 +1669,7 @@ " T127\n", " Vitamin\n", " vita\n", - " None\n", + " SmallMolecule\n", " \n", " \n", " 5\n", @@ -1705,13 +1707,13 @@ "70 InformationContentEntity \n", "53 Procedure \n", "2 None \n", - "104 None \n", + "104 SmallMolecule \n", "5 None \n", "\n", "[136 rows x 4 columns]" ] }, - "execution_count": 32, + "execution_count": 28, "metadata": {}, "output_type": "execute_result" } @@ -1730,12 +1732,12 @@ }, { "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": "2022-12-08T22:32:14.164493Z", + "start_time": "2022-12-08T22:32:14.160246Z" } }, "outputs": [ @@ -1752,7 +1754,7 @@ "{'cnce', 'crbs', 'enty', 'grpa', 'lang', 'phob'}" ] }, - "execution_count": 33, + "execution_count": 29, "metadata": {}, "output_type": "execute_result" } @@ -1764,12 +1766,12 @@ }, { "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": "2022-12-08T22:32:16.129237Z", + "start_time": "2022-12-08T22:32:16.125910Z" } }, "outputs": [], @@ -1780,12 +1782,12 @@ }, { "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": "2022-12-08T22:32:17.092879Z", + "start_time": "2022-12-08T22:32:17.084375Z" } }, "outputs": [ @@ -1885,7 +1887,7 @@ " T127\n", " Vitamin\n", " vita\n", - " None\n", + " SmallMolecule\n", " \n", " \n", " 5\n", @@ -1923,13 +1925,13 @@ "70 InformationContentEntity \n", "53 Procedure \n", "2 None \n", - "104 None \n", + "104 SmallMolecule \n", "5 None \n", "\n", "[130 rows x 4 columns]" ] }, - "execution_count": 35, + "execution_count": 31, "metadata": {}, "output_type": "execute_result" } @@ -1966,12 +1968,12 @@ }, { "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": "2022-12-08T22:32:25.434077Z", + "start_time": "2022-12-08T22:32:25.429953Z" } }, "outputs": [ @@ -1992,7 +1994,7 @@ " dtype=object)" ] }, - "execution_count": 36, + "execution_count": 32, "metadata": {}, "output_type": "execute_result" } @@ -2004,12 +2006,12 @@ }, { "cell_type": "code", - "execution_count": 77, + "execution_count": 36, "id": "fc902a02", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:54:16.837114Z", - "start_time": "2022-08-17T04:54:16.830079Z" + "end_time": "2022-12-08T22:37:18.272245Z", + "start_time": "2022-12-08T22:37:18.264993Z" } }, "outputs": [ @@ -2042,39 +2044,47 @@ " \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": 36, "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": 37, "id": "e641ae5c", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:54:35.495730Z", - "start_time": "2022-08-17T04:54:35.489791Z" + "end_time": "2022-12-08T22:37:22.217049Z", + "start_time": "2022-12-08T22:37:22.211016Z" } }, "outputs": [], @@ -2101,19 +2111,19 @@ "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": 38, "id": "a3a9da81", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:54:39.779885Z", - "start_time": "2022-08-17T04:54:39.773713Z" + "end_time": "2022-12-08T22:37:25.919984Z", + "start_time": "2022-12-08T22:37:25.914548Z" } }, "outputs": [], @@ -2190,12 +2200,12 @@ }, { "cell_type": "code", - "execution_count": 80, + "execution_count": 39, "id": "308358e6", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:54:52.233640Z", - "start_time": "2022-08-17T04:54:42.843393Z" + "end_time": "2022-12-08T22:37:38.499909Z", + "start_time": "2022-12-08T22:37:29.306458Z" } }, "outputs": [], @@ -2210,12 +2220,12 @@ }, { "cell_type": "code", - "execution_count": 81, + "execution_count": 40, "id": "67861c2e", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:54:57.850680Z", - "start_time": "2022-08-17T04:54:54.311893Z" + "end_time": "2022-12-08T22:37:43.823900Z", + "start_time": "2022-12-08T22:37:40.033835Z" } }, "outputs": [ @@ -2225,7 +2235,7 @@ "41" ] }, - "execution_count": 81, + "execution_count": 40, "metadata": {}, "output_type": "execute_result" }, @@ -2235,7 +2245,7 @@ "41" ] }, - "execution_count": 81, + "execution_count": 40, "metadata": {}, "output_type": "execute_result" }, @@ -2245,7 +2255,7 @@ "26" ] }, - "execution_count": 81, + "execution_count": 40, "metadata": {}, "output_type": "execute_result" } @@ -2263,12 +2273,12 @@ }, { "cell_type": "code", - "execution_count": 82, + "execution_count": 41, "id": "647e4065", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:55:02.296361Z", - "start_time": "2022-08-17T04:55:02.286678Z" + "end_time": "2022-12-08T22:38:02.698485Z", + "start_time": "2022-12-08T22:38:02.688368Z" } }, "outputs": [ @@ -2679,7 +2689,7 @@ "104 SmallMolecule " ] }, - "execution_count": 82, + "execution_count": 41, "metadata": {}, "output_type": "execute_result" } @@ -2693,27 +2703,27 @@ "id": "f4bf6f43", "metadata": {}, "source": [ - "### getting mappings for predicates" + "### getting mappings for predicates and qualifiers" ] }, { "cell_type": "code", - "execution_count": 83, + "execution_count": 56, "id": "52496738", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:55:09.432579Z", - "start_time": "2022-08-17T04:55:09.427703Z" + "end_time": "2022-12-08T22:44:21.125724Z", + "start_time": "2022-12-08T22:44:21.120802Z" } }, "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 +2738,12 @@ }, { "cell_type": "code", - "execution_count": 84, + "execution_count": 57, "id": "b05e90f6", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:55:17.098728Z", - "start_time": "2022-08-17T04:55:17.093668Z" + "end_time": "2022-12-08T22:44:24.097893Z", + "start_time": "2022-12-08T22:44:24.093032Z" } }, "outputs": [ @@ -2749,7 +2759,7 @@ " 'stimulates']" ] }, - "execution_count": 84, + "execution_count": 57, "metadata": {}, "output_type": "execute_result" } @@ -2760,7 +2770,7 @@ "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 +2789,185 @@ }, { "cell_type": "code", - "execution_count": 85, + "execution_count": 58, "id": "6a3d217d", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:55:28.347139Z", - "start_time": "2022-08-17T04:55:28.333498Z" + "end_time": "2022-12-08T22:44:27.342103Z", + "start_time": "2022-12-08T22:44:27.329141Z" } }, "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": 59, "id": "ec402da4", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:56:33.778840Z", - "start_time": "2022-08-17T04:56:33.775318Z" + "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
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61 rows × 2 columns

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" + ], + "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['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(\"-\", \"\")]\n", + "SEMMED_predicates['Semmed_in_BM'] = SEMMED_predicates['Semmed_in_BM'].str.upper()\n", + "SEMMED_predicates" ] }, { "cell_type": "code", - "execution_count": 93, + "execution_count": 60, "id": "979e0da8", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:57:56.287924Z", - "start_time": "2022-08-17T04:57:56.279145Z" + "end_time": "2022-12-08T22:44:32.575017Z", + "start_time": "2022-12-08T22:44:32.571085Z" } }, "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": 61, "id": "5d7f7944", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T04:58:02.789227Z", - "start_time": "2022-08-17T04:58:02.778212Z" + "end_time": "2022-12-08T22:44:33.408136Z", + "start_time": "2022-12-08T22:44:33.397951Z" } }, "outputs": [ @@ -2857,7 +2977,7 @@ "26" ] }, - "execution_count": 94, + "execution_count": 61, "metadata": {}, "output_type": "execute_result" }, @@ -2882,193 +3002,166 @@ " \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", + " SEMMEDDB:ADMINISTERED_TO\n", " affects\n", " \n", " \n", " 145\n", " affects\n", - " affected_by\n", - " SEMMEDDB:affects\n", + " SEMMEDDB:AFFECTS\n", " affects\n", " \n", " \n", " 160\n", " associated_with\n", - " associated_with\n", - " SEMMEDDB:associated_with\n", - " associated_with\n", + " SEMMEDDB:ASSOCIATED_WITH\n", + " related_to\n", " \n", " \n", " 55\n", " augments\n", - " \n", - " SEMMEDDB:augments\n", - " entity_positively_regulates_entity\n", + " SEMMEDDB:AUGMENTS\n", + " None\n", " \n", " \n", " 141\n", " causes\n", - " caused_by\n", - " SEMMEDDB:causes\n", + " SEMMEDDB:CAUSES\n", " causes\n", " \n", " \n", " 56\n", " coexists_with\n", - " \n", - " SEMMEDDB:coexists_with\n", + " SEMMEDDB:COEXISTS_WITH\n", " coexists_with\n", " \n", " \n", " 143\n", " complicates\n", - " complicated_by\n", - " SEMMEDDB:complicates\n", + " SEMMEDDB:COMPLICATES\n", " exacerbates\n", " \n", " \n", " 57\n", " converts_to\n", - " \n", - " SEMMEDDB:converts_to\n", + " SEMMEDDB:CONVERTS_TO\n", " derives_into\n", " \n", " \n", " 157\n", " diagnoses\n", - " diagnosed_by\n", - " SEMMEDDB:diagnoses\n", + " SEMMEDDB:DIAGNOSES\n", " diagnoses\n", " \n", " \n", " 140\n", " disrupts\n", - " disrupted_by\n", - " SEMMEDDB:disrupts\n", + " SEMMEDDB:DISRUPTS\n", " disrupts\n", " \n", " \n", " 58\n", " inhibits\n", - " \n", - " SEMMEDDB:inhibits\n", - " entity_negatively_regulates_entity\n", + " SEMMEDDB:INHIBITS\n", + " None\n", " \n", " \n", " 136\n", " interacts_with\n", - " interacts_with\n", - " SEMMEDDB:interacts_with\n", + " SEMMEDDB:INTERACTS_WITH\n", " interacts_with\n", " \n", " \n", " 129\n", " location_of\n", - " has_location\n", - " SEMMEDDB:location_of\n", + " SEMMEDDB:LOCATION_OF\n", " location_of\n", " \n", " \n", " 144\n", " manifestation_of\n", - " has_manifestation\n", - " SEMMEDDB:manifestation_of\n", + " SEMMEDDB:MANIFESTATION_OF\n", " manifestation_of\n", " \n", " \n", " 156\n", " measures\n", - " measured_by\n", - " SEMMEDDB:measures\n", + " SEMMEDDB:MEASURES\n", " quantifier_qualifier\n", " \n", " \n", " 171\n", " method_of\n", - " has_method\n", - " SEMMEDDB:method_of\n", + " SEMMEDDB:METHOD_OF\n", " None\n", " \n", " \n", " 146\n", " occurs_in\n", - " has_occurrence\n", - " SEMMEDDB:occurs_in\n", + " SEMMEDDB:OCCURS_IN\n", " occurs_in\n", " \n", " \n", " 127\n", " part_of\n", - " has_part\n", - " SEMMEDDB:part_of\n", + " SEMMEDDB:PART_OF\n", " part_of\n", " \n", " \n", " 132\n", " precedes\n", - " follows\n", - " SEMMEDDB:precedes\n", + " SEMMEDDB:PRECEDES\n", " precedes\n", " \n", " \n", " 59\n", " predisposes\n", - " \n", - " SEMMEDDB:predisposes\n", + " SEMMEDDB:PREDISPOSES\n", " predisposes\n", " \n", " \n", " 142\n", " prevents\n", - " prevented_by\n", - " SEMMEDDB:prevents\n", + " SEMMEDDB:PREVENTS\n", " prevents\n", " \n", " \n", " 134\n", " process_of\n", - " has_process\n", - " SEMMEDDB:process_of\n", + " SEMMEDDB:PROCESS_OF\n", " occurs_in\n", " \n", " \n", " 138\n", " produces\n", - " produced_by\n", - " SEMMEDDB:produces\n", + " SEMMEDDB:PRODUCES\n", " produces\n", " \n", " \n", " 60\n", " stimulates\n", - " \n", - " SEMMEDDB:stimulates\n", - " entity_positively_regulates_entity\n", + " SEMMEDDB:STIMULATES\n", + " None\n", " \n", " \n", " 148\n", " treats\n", - " treated_by\n", - " SEMMEDDB:treats\n", + " SEMMEDDB:TREATS\n", " treats\n", " \n", " \n", " 149\n", " uses\n", - " used_by\n", - " SEMMEDDB:uses\n", + " SEMMEDDB:USES\n", " has_input\n", " \n", " \n", @@ -3076,64 +3169,36 @@ "" ], "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", - "\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", - "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": 94, + "execution_count": 61, "metadata": {}, "output_type": "execute_result" } @@ -3143,7 +3208,7 @@ "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)]" ] }, { @@ -3153,10 +3218,20 @@ "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 3.1.1 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", + " * 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", + "* 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)" @@ -3164,50 +3239,99 @@ }, { "cell_type": "code", - "execution_count": 95, + "execution_count": 63, + "id": "77adf097", + "metadata": { + "ExecuteTime": { + "end_time": "2022-12-08T22:48:18.767288Z", + "start_time": "2022-12-08T22:48:18.758192Z" + } + }, + "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,'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,'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", + " SEMMED_predicates.loc[index,'BMObjDirect'] = 'decreased'" + ] + }, + { + "cell_type": "code", + "execution_count": 65, "id": "80e84505", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:06:51.878275Z", - "start_time": "2022-08-17T05:06:51.875454Z" + "end_time": "2022-12-08T22:48:42.090594Z", + "start_time": "2022-12-08T22:48:42.087303Z" } }, "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": 66, "id": "52cfbbc4", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:06:59.159565Z", - "start_time": "2022-08-17T05:06:59.155313Z" + "end_time": "2022-12-08T22:48:51.794628Z", + "start_time": "2022-12-08T22:48:51.788663Z" } }, "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": 67, "id": "9718fe3a", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:07:00.562355Z", - "start_time": "2022-08-17T05:07:00.553019Z" + "end_time": "2022-12-08T22:48:52.600722Z", + "start_time": "2022-12-08T22:48:52.589092Z" } }, "outputs": [ @@ -3232,285 +3356,1397 @@ " \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", + " 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", + " 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", + " SEMMEDDB: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", + " SEMMEDDB:AUGMENTS\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", + " 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", + " 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", + " 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", + " 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", + " 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", + " 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", + " SEMMEDDB:INHIBITS\n", + " affects\n", + " causes\n", + " activity_or_abundance\n", + " decreased\n", + " affected_by\n", + " caused_by\n", " \n", " \n", " 136\n", " interacts_with\n", + " SEMMEDDB: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", + " SEMMEDDB:ISA\n", + " subclass_of\n", + " None\n", + " None\n", + " None\n", " subclass_of\n", - " superclass_of\n", + " None\n", " \n", " \n", " 129\n", " location_of\n", - " has_location\n", - " SEMMEDDB:location_of\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", + " 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", + " 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", + " 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", + " 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", + " 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", + " 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", + " 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", + " 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", + " 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", + " SEMMEDDB:STIMULATES\n", + " affects\n", + " causes\n", + " activity_or_abundance\n", + " increased\n", + " affected_by\n", + " caused_by\n", " \n", " \n", " 148\n", " treats\n", + " SEMMEDDB:TREATS\n", + " treats\n", + " None\n", + " None\n", + " None\n", " treated_by\n", - " SEMMEDDB:treats\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", + " \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 subclass_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": 67, + "metadata": {}, + "output_type": "execute_result" + } + ], + "source": [ + "SEMMED_predicates" + ] + }, + { + "cell_type": "markdown", + "id": "933327b9", + "metadata": {}, + "source": [ + "**PAUSE**\n", + "\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", + "* 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", + "
\n", + "\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": 68, + "id": "6dfd3797", + "metadata": { + "ExecuteTime": { + "end_time": "2022-12-08T22:50:23.945946Z", + "start_time": "2022-12-08T22:50:23.942532Z" + } + }, + "outputs": [], + "source": [ + "SEMMED_predicates['BMInv_SubjAsp'] = SEMMED_predicates['BMObjAsp'] \n", + "SEMMED_predicates['BMInv_SubjDirect'] = SEMMED_predicates['BMObjDirect'] " + ] + }, + { + "cell_type": "code", + "execution_count": 69, + "id": "f7239c6f", + "metadata": { + "ExecuteTime": { + "end_time": "2022-12-08T22:50:24.643086Z", + "start_time": "2022-12-08T22:50:24.630246Z" + }, + "scrolled": true + }, + "outputs": [ + { + "data": { + "text/html": [ + "
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SemmedPredSemmed_in_BMBMPredBMQualPredBMObjAspBMObjDirectBMPred_InvBMQualPred_InvBMInv_SubjAspBMInv_SubjDirect
54administered_toSEMMEDDB:ADMINISTERED_TOaffectsNoneNoneNoneaffected_byNoneNoneNone
145affectsSEMMEDDB:AFFECTSaffectsNoneNoneNoneaffected_byNoneNoneNone
160associated_withSEMMEDDB:ASSOCIATED_WITHrelated_toNoneNoneNonerelated_toNoneNoneNone
55augmentsSEMMEDDB:AUGMENTSaffectscausesactivity_or_abundanceincreasedaffected_bycaused_byactivity_or_abundanceincreased
141causesSEMMEDDB:CAUSEScausesNoneNoneNonecaused_byNoneNoneNone
56coexists_withSEMMEDDB:COEXISTS_WITHcoexists_withNoneNoneNonecoexists_withNoneNoneNone
143complicatesSEMMEDDB:COMPLICATESexacerbatesNoneNoneNoneis_exacerbated_byNoneNoneNone
57converts_toSEMMEDDB:CONVERTS_TOderives_intoNoneNoneNonederives_fromNoneNoneNone
157diagnosesSEMMEDDB:DIAGNOSESdiagnosesNoneNoneNoneis_diagnosed_byNoneNoneNone
140disruptsSEMMEDDB:DISRUPTSdisruptsNoneNoneNonedisrupted_byNoneNoneNone
58inhibitsSEMMEDDB:INHIBITSaffectscausesactivity_or_abundancedecreasedaffected_bycaused_byactivity_or_abundancedecreased
136interacts_withSEMMEDDB:INTERACTS_WITHinteracts_withNoneNoneNoneinteracts_withNoneNoneNone
172isaSEMMEDDB:ISAsubclass_ofNoneNoneNonesubclass_ofNoneNoneNone
129location_ofSEMMEDDB:LOCATION_OFlocation_ofNoneNoneNonelocated_inNoneNoneNone
144manifestation_ofSEMMEDDB:MANIFESTATION_OFmanifestation_ofNoneNoneNonehas_manifestationNoneNoneNone
156measuresSEMMEDDB:MEASURESquantifier_qualifierNoneNoneNonequantifier_qualifierNoneNoneNone
146occurs_inSEMMEDDB:OCCURS_INoccurs_inNoneNoneNonecontains_processNoneNoneNone
127part_ofSEMMEDDB:PART_OFpart_ofNoneNoneNonehas_partNoneNoneNone
132precedesSEMMEDDB:PRECEDESprecedesNoneNoneNonepreceded_byNoneNoneNone
59predisposesSEMMEDDB:PREDISPOSESpredisposesNoneNoneNonehas_predisposing_factorNoneNoneNone
142preventsSEMMEDDB:PREVENTSpreventsNoneNoneNoneprevented_byNoneNoneNone
134process_ofSEMMEDDB:PROCESS_OFoccurs_inNoneNoneNonecontains_processNoneNoneNone
138producesSEMMEDDB:PRODUCESproducesNoneNoneNoneproduced_byNoneNoneNone
60stimulatesSEMMEDDB:STIMULATESaffectscausesactivity_or_abundanceincreasedaffected_bycaused_byactivity_or_abundanceincreased
148treatsSEMMEDDB:TREATStreatsNoneNoneNonetreated_byNoneNoneNone
149usesSEMMEDDB:USEShas_inputNoneNoneNoneis_input_ofNoneNoneNone
\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 subclass_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": 69, + "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": 70, + "id": "50027e5e", + "metadata": { + "ExecuteTime": { + "end_time": "2022-12-08T22:50:49.627946Z", + "start_time": "2022-12-08T22:50:49.622533Z" + } + }, + "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": 71, + "id": "946dd392", + "metadata": { + "ExecuteTime": { + "end_time": "2022-12-08T22:50:50.571206Z", + "start_time": "2022-12-08T22:50:50.559009Z" + } + }, + "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_ofNoneNoneNonesubclass_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
149usesused_bySEMMEDDB:usesUSEShas_inputNoneNoneNoneis_input_ofNoneNoneNone
\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", + " 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", - " 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 " + " 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 subclass_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": 97, + "execution_count": 71, "metadata": {}, "output_type": "execute_result" } @@ -3519,44 +4755,6 @@ "SEMMED_predicates" ] }, - { - "cell_type": "markdown", - "id": "933327b9", - "metadata": {}, - "source": [ - "**PAUSE**\n", - "\n", - "Check if the predicate inverses look correct. \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", - "\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" - ] - }, - { - "cell_type": "code", - "execution_count": 98, - "id": "50027e5e", - "metadata": { - "ExecuteTime": { - "end_time": "2022-08-17T05:15:34.202840Z", - "start_time": "2022-08-17T05:15:34.198977Z" - } - }, - "outputs": [], - "source": [ - "SEMMED_predicates['NameInDataFormat'] = SEMMED_predicates['SemmedName'].str.upper()\n", - "SEMMED_predicates['NameInDataFormat'] = SEMMED_predicates['NameInDataFormat'].str.replace(\"-\", \"\")" - ] - }, { "cell_type": "markdown", "id": "9c8b1e2b", @@ -3574,12 +4772,12 @@ }, { "cell_type": "code", - "execution_count": 99, + "execution_count": 72, "id": "9079161f", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:15:49.763128Z", - "start_time": "2022-08-17T05:15:49.757414Z" + "end_time": "2022-12-08T22:50:59.589668Z", + "start_time": "2022-12-08T22:50:59.583818Z" } }, "outputs": [ @@ -3596,7 +4794,7 @@ "{'METHOD_OF'}" ] }, - "execution_count": 99, + "execution_count": 72, "metadata": {}, "output_type": "execute_result" }, @@ -3613,27 +4811,27 @@ "{'ISA'}" ] }, - "execution_count": 99, + "execution_count": 72, "metadata": {}, "output_type": "execute_result" } ], "source": [ "print(\"in data but not in mapping table\")\n", - "predicates - set(SEMMED_predicates['NameInDataFormat'])\n", + "predicates - set(SEMMED_predicates['Semmed_in_Data'])\n", "\n", "print(\"in mapping file but not in data\")\n", - "set(SEMMED_predicates['NameInDataFormat']) - predicates" + "set(SEMMED_predicates['Semmed_in_Data']) - predicates" ] }, { "cell_type": "code", - "execution_count": 100, + "execution_count": 73, "id": "5e25a929", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:15:53.998918Z", - "start_time": "2022-08-17T05:15:53.995197Z" + "end_time": "2022-12-08T22:51:01.902167Z", + "start_time": "2022-12-08T22:51:01.898216Z" } }, "outputs": [ @@ -3643,7 +4841,7 @@ "{'ISA', 'MEASURES', 'METHOD_OF', 'USES'}" ] }, - "execution_count": 100, + "execution_count": 73, "metadata": {}, "output_type": "execute_result" } @@ -3655,12 +4853,12 @@ }, { "cell_type": "code", - "execution_count": 101, + "execution_count": 74, "id": "5a46158c", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:15:55.177842Z", - "start_time": "2022-08-17T05:15:55.166026Z" + "end_time": "2022-12-08T22:51:02.585891Z", + "start_time": "2022-12-08T22:51:02.572206Z" } }, "outputs": [ @@ -3685,333 +4883,405 @@ " \n", " \n", " \n", - " SemmedName\n", - " SemmedInverse\n", - " SemmedCurie\n", - " BiolinkMapping\n", - " BiolinkInverse\n", - " NameInDataFormat\n", + " Semmed_in_Data\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", + " 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", " affects\n", + " None\n", + " None\n", + " None\n", " affected_by\n", - " SEMMEDDB:affects\n", - " affects\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", " causes\n", + " None\n", + " None\n", + " None\n", " caused_by\n", - " SEMMEDDB:causes\n", - " causes\n", - " caused_by\n", - " CAUSES\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 56\n", + " COEXISTS_WITH\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", + " 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", + " 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", " 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", " disrupts\n", + " None\n", + " None\n", + " None\n", " disrupted_by\n", - " SEMMEDDB:disrupts\n", - " disrupts\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", + " None\n", + " None\n", + " None\n", " interacts_with\n", - " SEMMEDDB:interacts_with\n", - " interacts_with\n", - " interacts_with\n", - " INTERACTS_WITH\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 129\n", + " LOCATION_OF\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", " manifestation_of\n", + " None\n", + " None\n", + " None\n", " has_manifestation\n", - " SEMMEDDB:manifestation_of\n", - " manifestation_of\n", - " has_manifestation\n", - " MANIFESTATION_OF\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 146\n", + " OCCURS_IN\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", " part_of\n", + " None\n", + " None\n", + " None\n", " has_part\n", - " SEMMEDDB:part_of\n", - " part_of\n", - " has_part\n", - " PART_OF\n", + " None\n", + " None\n", + " None\n", " \n", " \n", " 132\n", + " PRECEDES\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", " 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", " prevents\n", + " None\n", + " None\n", + " None\n", " prevented_by\n", - " SEMMEDDB:prevents\n", - " prevents\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", + " 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", " produces\n", + " None\n", + " None\n", + " None\n", " produced_by\n", - " SEMMEDDB:produces\n", - " produces\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", " treats\n", + " None\n", + " None\n", + " None\n", " treated_by\n", - " SEMMEDDB:treats\n", - " treats\n", - " treated_by\n", - " TREATS\n", + " None\n", + " None\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", - "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": 74, "metadata": {}, "output_type": "execute_result" }, { "data": { "text/plain": [ - "(23, 6)" + "(23, 9)" ] }, - "execution_count": 101, + "execution_count": 74, "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": 75, "id": "64cacd52", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:03.105144Z", - "start_time": "2022-08-17T05:16:01.132005Z" + "end_time": "2022-12-08T22:51:20.171286Z", + "start_time": "2022-12-08T22:51:17.663835Z" } }, "outputs": [], @@ -4022,12 +5292,12 @@ }, { "cell_type": "code", - "execution_count": 103, + "execution_count": 76, "id": "530e3631", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:08.113694Z", - "start_time": "2022-08-17T05:16:04.647152Z" + "end_time": "2022-12-08T22:51:25.212937Z", + "start_time": "2022-12-08T22:51:21.616206Z" } }, "outputs": [ @@ -4037,7 +5307,7 @@ "41" ] }, - "execution_count": 103, + "execution_count": 76, "metadata": {}, "output_type": "execute_result" }, @@ -4047,7 +5317,7 @@ "41" ] }, - "execution_count": 103, + "execution_count": 76, "metadata": {}, "output_type": "execute_result" }, @@ -4057,7 +5327,7 @@ "23" ] }, - "execution_count": 103, + "execution_count": 76, "metadata": {}, "output_type": "execute_result" } @@ -4070,7 +5340,7 @@ "\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 +5353,12 @@ }, { "cell_type": "code", - "execution_count": 104, + "execution_count": 77, "id": "863543b6", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:17.639553Z", - "start_time": "2022-08-17T05:16:12.431359Z" + "end_time": "2022-12-08T22:51:34.038483Z", + "start_time": "2022-12-08T22:51:28.506912Z" } }, "outputs": [ @@ -4098,7 +5368,7 @@ "(5936, 4)" ] }, - "execution_count": 104, + "execution_count": 77, "metadata": {}, "output_type": "execute_result" }, @@ -4218,7 +5488,7 @@ "9 bpoc PART_OF bpoc 542301" ] }, - "execution_count": 104, + "execution_count": 77, "metadata": {}, "output_type": "execute_result" } @@ -4249,12 +5519,12 @@ }, { "cell_type": "code", - "execution_count": 105, + "execution_count": 78, "id": "d874b8f2", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:22.967022Z", - "start_time": "2022-08-17T05:16:22.957507Z" + "end_time": "2022-12-08T22:51:37.343593Z", + "start_time": "2022-12-08T22:51:37.333936Z" } }, "outputs": [ @@ -4385,7 +5655,7 @@ "[3032 rows x 4 columns]" ] }, - "execution_count": 105, + "execution_count": 78, "metadata": {}, "output_type": "execute_result" } @@ -4396,12 +5666,12 @@ }, { "cell_type": "code", - "execution_count": 106, + "execution_count": 79, "id": "86920c33", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:26.730363Z", - "start_time": "2022-08-17T05:16:26.721720Z" + "end_time": "2022-12-08T22:51:39.304189Z", + "start_time": "2022-12-08T22:51:39.295052Z" } }, "outputs": [ @@ -4489,7 +5759,7 @@ "2383 aapp PRODUCES carb 289" ] }, - "execution_count": 106, + "execution_count": 79, "metadata": {}, "output_type": "execute_result" } @@ -4506,22 +5776,22 @@ }, { "cell_type": "code", - "execution_count": 107, + "execution_count": 80, "id": "2c859df9", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:29.550504Z", - "start_time": "2022-08-17T05:16:29.541378Z" + "end_time": "2022-12-08T22:51:41.393502Z", + "start_time": "2022-12-08T22:51:41.383836Z" } }, "outputs": [ { "data": { "text/plain": [ - "(3032, 4)" + "(3032, 3)" ] }, - "execution_count": 107, + "execution_count": 80, "metadata": {}, "output_type": "execute_result" }, @@ -4549,7 +5819,6 @@ " SUBJECT_SEMTYPE\n", " PREDICATE\n", " OBJECT_SEMTYPE\n", - " COUNT\n", " \n", " \n", " \n", @@ -4558,53 +5827,50 @@ " 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": 80, "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": 81, "id": "b53030eb", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:33.382768Z", - "start_time": "2022-08-17T05:16:33.375665Z" + "end_time": "2022-12-08T22:51:42.780340Z", + "start_time": "2022-12-08T22:51:42.771773Z" } }, "outputs": [], @@ -4616,65 +5882,232 @@ "\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": 82, + "id": "9e435399", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:34.347665Z", - "start_time": "2022-08-17T05:16:34.340693Z" + "end_time": "2022-12-08T22:51:45.386763Z", + "start_time": "2022-12-08T22:51:45.377831Z" } }, "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": 83, + "id": "a0fe51f5", + "metadata": { + "ExecuteTime": { + "end_time": "2022-12-08T22:51:46.470204Z", + "start_time": "2022-12-08T22:51:46.460861Z" + } + }, + "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": 83, + "metadata": {}, + "output_type": "execute_result" + } + ], + "source": [ + "filtered_combos" + ] + }, + { + "cell_type": "code", + "execution_count": 84, + "id": "3f42bd07", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:35.036793Z", - "start_time": "2022-08-17T05:16:35.026767Z" + "end_time": "2022-12-08T22:51:52.701528Z", + "start_time": "2022-12-08T22:51:52.695506Z" } }, "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": 85, + "id": "6c651d23", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:37.161168Z", - "start_time": "2022-08-17T05:16:37.152938Z" + "end_time": "2022-12-08T22:51:53.361249Z", + "start_time": "2022-12-08T22:51:53.349958Z" } }, "outputs": [ @@ -4702,11 +6135,16 @@ " 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 +6153,71 @@ " 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", + " 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", - " 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 " + " 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": 85, "metadata": {}, "output_type": "execute_result" } @@ -4770,12 +6228,12 @@ }, { "cell_type": "code", - "execution_count": 112, + "execution_count": 86, "id": "cc7864f5", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:38.778740Z", - "start_time": "2022-08-17T05:16:38.759340Z" + "end_time": "2022-12-08T22:51:56.362074Z", + "start_time": "2022-12-08T22:51:56.338568Z" } }, "outputs": [ @@ -4803,11 +6261,16 @@ " 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 +6280,11 @@ ], "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": 86, "metadata": {}, "output_type": "execute_result" }, @@ -4849,11 +6312,16 @@ " 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 +6331,11 @@ ], "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": 86, "metadata": {}, "output_type": "execute_result" }, @@ -4895,11 +6363,16 @@ " 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 +6382,11 @@ ], "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": 86, "metadata": {}, "output_type": "execute_result" }, @@ -4941,11 +6414,16 @@ " 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 +6433,11 @@ ], "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": 86, "metadata": {}, "output_type": "execute_result" } @@ -4967,19 +6445,34 @@ "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 +6481,8 @@ "ExecuteTime": { "end_time": "2022-08-17T05:16:46.369759Z", "start_time": "2022-08-17T05:16:46.362883Z" - } + }, + "hidden": true }, "outputs": [], "source": [ @@ -5013,7 +6507,8 @@ "ExecuteTime": { "end_time": "2022-08-17T05:16:47.194635Z", "start_time": "2022-08-17T05:16:47.181968Z" - } + }, + "hidden": true }, "outputs": [ { @@ -5533,17 +7028,18 @@ "**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": 87, "id": "1fcf921d", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:16:57.389262Z", - "start_time": "2022-08-17T05:16:57.385096Z" + "end_time": "2022-12-08T22:52:03.049392Z", + "start_time": "2022-12-08T22:52:03.045034Z" } }, "outputs": [], @@ -5554,18 +7050,20 @@ }, { "cell_type": "code", - "execution_count": 116, - "id": "4849cde4", + "execution_count": 88, + "id": "222c6bd1", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:18:06.014049Z", - "start_time": "2022-08-17T05:18:06.009067Z" + "end_time": "2022-12-08T22:52:05.822912Z", + "start_time": "2022-12-08T22:52:05.815420Z" } }, "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 +7079,103 @@ " '\"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": 89, + "id": "912aa75d", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:18:11.718327Z", - "start_time": "2022-08-17T05:18:11.713378Z" + "end_time": "2022-12-08T22:52:07.391062Z", + "start_time": "2022-12-08T22:52:07.383708Z" } }, "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 +7191,95 @@ " '\"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": 90, "id": "db9f9f81", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:18:15.053856Z", - "start_time": "2022-08-17T05:18:15.048320Z" + "end_time": "2022-12-08T22:52:08.278624Z", + "start_time": "2022-12-08T22:52:08.272488Z" } }, "outputs": [], @@ -5711,10 +7300,13 @@ " 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 +7316,12 @@ " 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 +7337,12 @@ }, { "cell_type": "code", - "execution_count": 119, + "execution_count": 91, "id": "3856781d", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:18:19.290936Z", - "start_time": "2022-08-17T05:18:19.270894Z" + "end_time": "2022-12-08T22:52:11.986869Z", + "start_time": "2022-12-08T22:52:11.963446Z" } }, "outputs": [], @@ -5757,12 +7352,12 @@ }, { "cell_type": "code", - "execution_count": 120, + "execution_count": 92, "id": "fdcd4202", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:18:20.280290Z", - "start_time": "2022-08-17T05:18:20.276859Z" + "end_time": "2022-12-08T22:52:13.091295Z", + "start_time": "2022-12-08T22:52:13.087714Z" } }, "outputs": [ @@ -5772,7 +7367,7 @@ "2497" ] }, - "execution_count": 120, + "execution_count": 92, "metadata": {}, "output_type": "execute_result" } @@ -5781,6 +7376,49 @@ "len(kgs_operations['x-bte-kgs-operations'])" ] }, + { + "cell_type": "code", + "execution_count": 93, + "id": "5495d772", + "metadata": { + "ExecuteTime": { + "end_time": "2022-12-08T22:52:15.657999Z", + "start_time": "2022-12-08T22:52:15.653465Z" + } + }, + "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 +7434,12 @@ }, { "cell_type": "code", - "execution_count": 121, + "execution_count": 94, "id": "239dce9d", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:18:27.978306Z", - "start_time": "2022-08-17T05:18:24.062338Z" + "end_time": "2022-12-08T22:52:41.563409Z", + "start_time": "2022-12-08T22:52:37.405673Z" } }, "outputs": [], @@ -5824,12 +7462,12 @@ }, { "cell_type": "code", - "execution_count": 122, + "execution_count": 95, "id": "27403608", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:18:29.971726Z", - "start_time": "2022-08-17T05:18:29.968750Z" + "end_time": "2022-12-08T22:52:45.928167Z", + "start_time": "2022-12-08T22:52:45.924961Z" } }, "outputs": [], @@ -5844,12 +7482,12 @@ }, { "cell_type": "code", - "execution_count": 123, + "execution_count": 96, "id": "4bec97ed", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:18:33.875873Z", - "start_time": "2022-08-17T05:18:33.872623Z" + "end_time": "2022-12-08T22:52:47.614059Z", + "start_time": "2022-12-08T22:52:47.611199Z" } }, "outputs": [], @@ -5859,12 +7497,12 @@ }, { "cell_type": "code", - "execution_count": 124, + "execution_count": 97, "id": "e64c34db", "metadata": { "ExecuteTime": { - "end_time": "2022-08-17T05:18:34.926260Z", - "start_time": "2022-08-17T05:18:34.590589Z" + "end_time": "2022-12-08T22:52:48.628066Z", + "start_time": "2022-12-08T22:52:48.289221Z" } }, "outputs": [], @@ -6095,10 +7733,10 @@ "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 diff --git a/semmeddb/generated_operations.yaml b/semmeddb/generated_operations.yaml index 0ec5d2fd..c2f63c05 100644 --- a/semmeddb/generated_operations.yaml +++ b/semmeddb/generated_operations.yaml @@ -457,7 +457,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -479,7 +483,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -611,7 +619,7 @@ 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' @@ -633,7 +641,7 @@ 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' @@ -787,7 +795,7 @@ 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' @@ -809,7 +817,7 @@ 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' @@ -831,7 +839,7 @@ 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' @@ -941,7 +949,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -963,7 +975,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -1205,7 +1221,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -1227,7 +1247,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -1491,7 +1515,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -1513,7 +1541,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -1535,7 +1567,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -1557,7 +1593,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -1975,7 +2015,7 @@ 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' @@ -1997,7 +2037,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -2019,7 +2063,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -2217,7 +2265,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -2349,7 +2401,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -2371,7 +2427,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -2393,7 +2453,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -2415,7 +2479,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -2503,7 +2571,7 @@ 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' @@ -2525,7 +2593,7 @@ 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' @@ -2723,7 +2791,7 @@ 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' @@ -2745,7 +2813,7 @@ 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' @@ -3009,7 +3077,7 @@ 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' @@ -3031,7 +3099,7 @@ 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' @@ -3229,7 +3297,7 @@ 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' @@ -3251,7 +3319,7 @@ 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' @@ -3603,7 +3671,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -3669,7 +3741,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -3691,7 +3767,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -3713,7 +3793,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -3735,7 +3819,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -4219,7 +4307,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -4241,7 +4333,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -4263,7 +4359,7 @@ 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' @@ -4373,7 +4469,7 @@ 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' @@ -4395,7 +4491,7 @@ 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' @@ -5011,7 +5107,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -5297,7 +5397,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: GrossAnatomicalStructure - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -5319,7 +5423,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5341,7 +5449,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -5363,7 +5475,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5539,7 +5655,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -5605,7 +5725,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -5627,7 +5751,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -5891,7 +6019,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -5913,7 +6045,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -6067,7 +6203,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -6089,7 +6229,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -6111,7 +6255,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -6265,7 +6413,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -6485,7 +6637,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -6815,7 +6971,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -7365,7 +7525,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -7387,7 +7551,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -7739,7 +7907,7 @@ 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' @@ -7761,7 +7929,7 @@ 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' @@ -7783,7 +7951,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: GrossAnatomicalStructure - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -7805,7 +7977,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -7827,7 +8003,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -7871,7 +8051,7 @@ 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' @@ -7915,7 +8095,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -7937,7 +8121,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8113,7 +8301,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8135,7 +8327,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8157,7 +8353,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8179,7 +8379,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8333,7 +8537,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8553,7 +8761,7 @@ 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' @@ -8575,7 +8783,7 @@ 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' @@ -8641,7 +8849,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -8663,7 +8875,7 @@ 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' @@ -8729,7 +8941,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8993,7 +9209,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -9015,7 +9235,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Procedure - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -9301,7 +9525,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -9323,7 +9551,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -9433,7 +9665,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -9455,7 +9691,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -9521,7 +9761,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -9543,7 +9787,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -9697,7 +9945,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -9763,7 +10015,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -9917,7 +10173,7 @@ 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' @@ -10005,7 +10261,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -10027,7 +10287,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -10137,7 +10401,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -10269,7 +10537,7 @@ 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' @@ -10291,7 +10559,7 @@ 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' @@ -10423,7 +10691,7 @@ 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' @@ -10445,7 +10713,7 @@ 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' @@ -10885,7 +11153,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -11193,7 +11465,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -11281,7 +11557,7 @@ 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' @@ -11303,7 +11579,7 @@ 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' @@ -11369,7 +11645,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -11391,7 +11671,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: CellularComponent - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -11413,7 +11697,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11589,7 +11877,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11677,7 +11969,7 @@ 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' @@ -12161,7 +12453,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12183,7 +12479,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -12403,7 +12703,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -12535,7 +12839,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: GrossAnatomicalStructure - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12557,7 +12865,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -12711,7 +13023,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12733,7 +13049,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12799,7 +13119,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12821,7 +13145,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -13195,7 +13523,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -13217,7 +13549,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -13503,7 +13839,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -13525,7 +13865,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -13635,7 +13979,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -13657,7 +14005,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -13789,7 +14141,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -13811,7 +14167,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14119,7 +14479,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -14141,7 +14505,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14163,7 +14531,7 @@ 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' @@ -14251,7 +14619,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -14273,7 +14645,7 @@ 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' @@ -14383,7 +14755,7 @@ 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' @@ -14559,7 +14931,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -14581,7 +14957,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14603,7 +14983,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14625,7 +15009,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14647,7 +15035,7 @@ 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' @@ -14669,7 +15057,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14691,7 +15083,7 @@ 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' @@ -14955,7 +15347,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15175,7 +15571,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15197,7 +15597,7 @@ 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' @@ -15219,7 +15619,7 @@ 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' @@ -15307,7 +15707,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -15329,7 +15733,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -15461,7 +15869,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -15483,7 +15895,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15637,7 +16053,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -15769,7 +16189,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15835,7 +16259,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -15857,7 +16285,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -16011,7 +16443,7 @@ 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' @@ -16033,7 +16465,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -16055,7 +16491,7 @@ 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' @@ -16187,7 +16623,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -16341,7 +16781,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16517,7 +16961,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -16671,7 +17119,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: CellularComponent - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -16693,7 +17145,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16715,7 +17171,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17089,7 +17549,7 @@ 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' @@ -17133,7 +17593,7 @@ 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' @@ -17243,7 +17703,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17419,7 +17883,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -17441,7 +17909,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -17793,7 +18265,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -18101,7 +18577,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -18123,7 +18603,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -18189,7 +18673,7 @@ 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' @@ -18211,7 +18695,7 @@ 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' @@ -18321,7 +18805,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -18387,7 +18875,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -18453,7 +18945,7 @@ 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' @@ -18541,7 +19033,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -18827,7 +19323,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -18959,7 +19459,7 @@ 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' @@ -18981,7 +19481,7 @@ 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' @@ -19003,7 +19503,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19201,7 +19705,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -19245,7 +19753,7 @@ 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' @@ -19311,7 +19819,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -19553,7 +20065,7 @@ 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' @@ -19619,7 +20131,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -19685,7 +20201,7 @@ 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' @@ -19707,7 +20223,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: CellularComponent - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19729,7 +20249,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -19751,7 +20275,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19839,7 +20367,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19949,7 +20481,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -19993,7 +20529,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -20015,7 +20555,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -20103,7 +20647,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -20367,7 +20915,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -20389,7 +20941,7 @@ 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' @@ -20521,7 +21073,7 @@ 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' @@ -20587,7 +21139,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -20653,7 +21209,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -20719,7 +21279,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -20851,7 +21415,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -21049,7 +21617,7 @@ 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' @@ -21071,7 +21639,7 @@ 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' @@ -21225,7 +21793,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -21269,7 +21841,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21401,7 +21977,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -21423,7 +22003,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21599,7 +22183,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21797,7 +22385,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21819,7 +22411,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -21863,7 +22459,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21885,7 +22485,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22017,7 +22621,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22039,7 +22647,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22325,7 +22937,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22347,7 +22963,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22391,7 +23011,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22435,7 +23059,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22501,7 +23129,7 @@ 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' @@ -22523,7 +23151,7 @@ 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' @@ -22611,7 +23239,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22633,7 +23265,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22677,7 +23313,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22721,7 +23361,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22743,7 +23387,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22985,7 +23633,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -23095,7 +23747,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -23117,7 +23773,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -23227,7 +23887,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -23337,7 +24001,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -23777,7 +24445,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -23799,7 +24471,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24019,7 +24695,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -24085,7 +24765,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24239,7 +24923,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -24261,7 +24949,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -24459,7 +25151,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -24525,7 +25221,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24547,7 +25247,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24657,7 +25361,7 @@ 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' @@ -24679,7 +25383,7 @@ 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' @@ -24723,7 +25427,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24745,7 +25453,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24789,7 +25501,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -24811,7 +25527,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -24899,7 +25619,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24921,7 +25645,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -24943,7 +25671,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24987,7 +25719,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25053,7 +25789,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -25097,7 +25837,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25119,7 +25863,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25207,7 +25955,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25339,7 +26091,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25405,7 +26161,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -25449,7 +26209,7 @@ 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' @@ -25471,7 +26231,7 @@ 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' @@ -25493,7 +26253,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -25537,7 +26301,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25625,7 +26393,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25735,7 +26507,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25801,7 +26577,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25823,7 +26603,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25845,7 +26629,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -26021,7 +26809,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26065,7 +26857,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26109,7 +26905,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -26175,7 +26975,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -26241,7 +27045,7 @@ 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' @@ -26373,7 +27177,7 @@ 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' @@ -26417,7 +27221,7 @@ 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' @@ -26461,7 +27265,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26615,7 +27423,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -26637,7 +27449,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26879,7 +27695,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27033,7 +27853,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27055,7 +27879,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27319,7 +28147,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27341,7 +28173,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27363,7 +28199,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -27385,7 +28225,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -27451,7 +28295,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27627,7 +28475,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27803,7 +28655,7 @@ 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' @@ -27825,7 +28677,7 @@ 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' @@ -27935,7 +28787,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27957,7 +28813,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28001,7 +28861,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28133,7 +28997,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28155,7 +29023,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28331,7 +29203,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28485,7 +29361,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -28595,7 +29475,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28661,7 +29545,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28837,7 +29725,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -28859,7 +29751,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28903,7 +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' @@ -29277,7 +30173,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29299,7 +30199,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29343,7 +30247,7 @@ 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' @@ -29365,7 +30269,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -29387,7 +30295,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -29409,7 +30321,7 @@ 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' @@ -29431,7 +30343,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29541,7 +30457,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29651,7 +30571,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -29695,7 +30619,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -29717,7 +30645,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29761,7 +30693,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29915,7 +30851,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29959,7 +30899,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30003,7 +30947,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -30113,7 +31061,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30179,7 +31131,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -30289,7 +31245,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30355,7 +31315,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -30509,7 +31473,7 @@ 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' @@ -30531,7 +31495,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30707,7 +31675,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30795,7 +31767,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30993,7 +31969,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31103,7 +32083,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -31499,7 +32483,7 @@ 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' @@ -31719,7 +32703,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31851,7 +32839,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31961,7 +32953,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32071,7 +33067,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -32093,7 +33093,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32203,7 +33207,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -32357,7 +33365,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32401,7 +33413,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -32467,7 +33483,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32511,7 +33531,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32533,7 +33557,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32665,7 +33693,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32951,7 +33983,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33061,7 +34097,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -33083,7 +34123,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -33105,7 +34149,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -33171,7 +34219,7 @@ 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' @@ -33193,7 +34241,7 @@ 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' @@ -33303,7 +34351,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -33391,7 +34443,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -33413,7 +34469,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33523,7 +34583,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33677,7 +34741,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -33853,7 +34921,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33941,7 +35013,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34007,7 +35083,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34205,7 +35285,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -34227,7 +35311,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34249,7 +35337,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -34293,7 +35385,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -34315,7 +35411,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34469,7 +35569,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -34535,7 +35639,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -34557,7 +35665,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -34733,7 +35845,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -34821,7 +35937,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -35085,7 +36205,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -35261,7 +36385,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -35393,7 +36521,7 @@ 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' @@ -35415,7 +36543,7 @@ 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' @@ -35745,7 +36873,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -35789,7 +36921,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -35811,7 +36947,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35965,7 +37105,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -35987,7 +37131,7 @@ 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' @@ -36009,7 +37153,7 @@ 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' @@ -36031,7 +37175,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36053,7 +37201,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36185,7 +37337,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -36207,7 +37363,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36273,7 +37433,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36295,7 +37459,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36361,7 +37529,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36383,7 +37555,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36757,7 +37933,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36779,7 +37959,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36867,7 +38051,7 @@ 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' @@ -36889,7 +38073,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36911,7 +38099,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -37043,7 +38235,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37065,7 +38261,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -37087,7 +38287,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37109,7 +38313,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37263,7 +38471,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37285,7 +38497,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37373,7 +38589,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -37417,7 +38637,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37439,7 +38663,7 @@ 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' @@ -37461,7 +38685,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37483,7 +38711,7 @@ 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' @@ -37681,7 +38909,7 @@ 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' @@ -37747,7 +38975,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -37769,7 +39001,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -37791,7 +39027,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37813,7 +39053,7 @@ 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' @@ -37835,7 +39075,7 @@ 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' @@ -38121,7 +39361,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -38407,7 +39651,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -38495,7 +39743,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -38583,7 +39835,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -38671,7 +39927,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -38869,7 +40129,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39089,7 +40353,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39111,7 +40379,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39199,7 +40471,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39221,7 +40497,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -39243,7 +40523,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -39309,7 +40593,7 @@ 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' @@ -39463,7 +40747,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39573,7 +40861,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -39595,7 +40887,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -39683,7 +40979,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39727,7 +41027,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39859,7 +41163,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39881,7 +41189,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40013,7 +41325,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40101,7 +41417,7 @@ 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' @@ -40123,7 +41439,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40167,7 +41487,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -40475,7 +41799,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -40607,7 +41935,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -40629,7 +41961,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -40673,7 +42009,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -40717,7 +42057,7 @@ 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' @@ -40805,7 +42145,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -40871,7 +42215,7 @@ 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' @@ -40981,7 +42325,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -41179,7 +42527,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -41201,7 +42553,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -41223,7 +42579,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41245,7 +42605,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41289,7 +42653,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41817,7 +43185,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -41839,7 +43211,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -41883,7 +43259,7 @@ 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' @@ -41927,7 +43303,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -42081,7 +43461,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -42257,7 +43641,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -42279,7 +43667,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42455,7 +43847,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42477,7 +43873,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -42499,7 +43899,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -42543,7 +43947,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42565,7 +43973,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42609,7 +44021,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42653,7 +44069,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43071,7 +44491,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -43093,7 +44517,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43159,7 +44587,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43379,7 +44811,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43401,7 +44837,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43555,7 +44995,7 @@ 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' @@ -43577,7 +45017,7 @@ 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' @@ -43599,7 +45039,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43643,7 +45087,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43775,7 +45223,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -43797,7 +45249,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Protein - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -43885,7 +45341,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -43907,7 +45367,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -43951,7 +45415,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44017,7 +45485,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44281,7 +45753,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44523,7 +45999,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44567,7 +46047,7 @@ 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' @@ -44633,7 +46113,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44941,7 +46425,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Protein - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -44963,7 +46451,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -45227,7 +46719,7 @@ 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' @@ -45293,7 +46785,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -45381,7 +46877,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -45425,7 +46925,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45535,7 +47039,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -45887,7 +47395,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45953,7 +47465,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -45975,7 +47491,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45997,7 +47517,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46239,7 +47763,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46305,7 +47833,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -46371,7 +47903,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -46393,7 +47929,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46415,7 +47955,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -46503,7 +48047,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -46525,7 +48073,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46613,7 +48165,7 @@ 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' @@ -46723,7 +48275,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -46921,7 +48477,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -47097,7 +48657,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -47185,7 +48749,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47229,7 +48797,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47339,7 +48911,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -47361,7 +48937,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -47427,7 +49007,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -47449,7 +49033,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47647,7 +49235,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -47801,7 +49393,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47845,7 +49441,7 @@ 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' @@ -47867,7 +49463,7 @@ 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' @@ -47933,7 +49529,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Protein - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -47955,7 +49555,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47999,7 +49603,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -48153,7 +49761,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48175,7 +49787,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48263,7 +49879,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -48285,7 +49905,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -48461,7 +50085,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -48593,7 +50221,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -48615,7 +50247,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48637,7 +50273,7 @@ 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' @@ -48835,7 +50471,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48923,7 +50563,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -49121,7 +50765,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -49209,7 +50857,7 @@ 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' @@ -49385,7 +51033,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49473,7 +51125,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Protein - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -49495,7 +51151,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49517,7 +51177,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49803,7 +51467,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49847,7 +51515,7 @@ 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' @@ -49869,7 +51537,7 @@ 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' @@ -49891,7 +51559,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50155,7 +51827,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50177,7 +51853,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50243,7 +51923,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -50265,7 +51949,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50287,7 +51975,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Protein - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50309,7 +52001,7 @@ 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' @@ -50397,7 +52089,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50441,7 +52137,7 @@ 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' @@ -50463,7 +52159,7 @@ 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' @@ -50639,7 +52335,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50661,7 +52361,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50771,7 +52475,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50793,7 +52501,7 @@ 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' @@ -51101,7 +52809,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -51123,7 +52835,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51167,7 +52883,7 @@ 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' @@ -51277,7 +52993,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -51387,7 +53107,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51651,7 +53375,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51915,7 +53643,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -51959,7 +53691,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Protein - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -51981,7 +53717,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -52157,7 +53897,7 @@ 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' @@ -52179,7 +53919,7 @@ 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' @@ -52421,7 +54161,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -52663,7 +54407,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -52905,7 +54653,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53015,7 +54767,7 @@ 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' @@ -53279,7 +55031,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53411,7 +55167,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53631,7 +55391,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53785,7 +55549,7 @@ 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' @@ -53939,7 +55703,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -54159,7 +55927,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54203,7 +55975,7 @@ 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' @@ -54225,7 +55997,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -54379,7 +56155,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54423,7 +56203,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -54577,7 +56361,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -54621,7 +56409,7 @@ 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' @@ -54643,7 +56431,7 @@ 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' @@ -54665,7 +56453,7 @@ 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' @@ -54687,7 +56475,7 @@ 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' @@ -54775,7 +56563,7 @@ 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' @@ -54929,7 +56717,11 @@ x-bte-kgs-operations: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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 d0cfd073..7a9b48e1 100644 --- a/semmeddb/smartapi.yaml +++ b/semmeddb/smartapi.yaml @@ -17,7 +17,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.4.8" + biolink-version: "3.1.1" servers: - description: Production server url: https://biothings.ncats.io/semmeddb @@ -3600,7 +3600,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -3622,7 +3626,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -3754,7 +3762,7 @@ 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' @@ -3776,7 +3784,7 @@ 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' @@ -3930,7 +3938,7 @@ 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' @@ -3952,7 +3960,7 @@ 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' @@ -3974,7 +3982,7 @@ 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' @@ -4084,7 +4092,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -4106,7 +4118,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -4348,7 +4364,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -4370,7 +4390,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -4634,7 +4658,11 @@ components: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -4656,7 +4684,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -4678,7 +4710,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -4700,7 +4736,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5118,7 +5158,7 @@ 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' @@ -5140,7 +5180,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -5162,7 +5206,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5360,7 +5408,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5492,7 +5544,11 @@ components: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -5514,7 +5570,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -5536,7 +5596,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -5558,7 +5622,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -5646,7 +5714,7 @@ 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' @@ -5668,7 +5736,7 @@ 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' @@ -5866,7 +5934,7 @@ 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' @@ -5888,7 +5956,7 @@ 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' @@ -6152,7 +6220,7 @@ 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' @@ -6174,7 +6242,7 @@ 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' @@ -6372,7 +6440,7 @@ 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' @@ -6394,7 +6462,7 @@ 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' @@ -6746,7 +6814,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -6812,7 +6884,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -6834,7 +6910,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -6856,7 +6936,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -6878,7 +6962,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -7362,7 +7450,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -7384,7 +7476,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -7406,7 +7502,7 @@ 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' @@ -7516,7 +7612,7 @@ 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' @@ -7538,7 +7634,7 @@ 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' @@ -8154,7 +8250,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -8440,7 +8540,11 @@ components: outputs: - id: UMLS semantic: GrossAnatomicalStructure - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8462,7 +8566,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8484,7 +8592,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8506,7 +8618,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -8682,7 +8798,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -8748,7 +8868,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -8770,7 +8894,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -9034,7 +9162,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -9056,7 +9188,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -9210,7 +9346,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -9232,7 +9372,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -9254,7 +9398,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -9408,7 +9556,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -9628,7 +9780,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -9958,7 +10114,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -10508,7 +10668,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -10530,7 +10694,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -10882,7 +11050,7 @@ 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' @@ -10904,7 +11072,7 @@ 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' @@ -10926,7 +11094,11 @@ components: outputs: - id: UMLS semantic: GrossAnatomicalStructure - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -10948,7 +11120,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -10970,7 +11146,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11014,7 +11194,7 @@ 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' @@ -11058,7 +11238,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -11080,7 +11264,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11256,7 +11444,11 @@ components: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -11278,7 +11470,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11300,7 +11496,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -11322,7 +11522,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -11476,7 +11680,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -11696,7 +11904,7 @@ 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' @@ -11718,7 +11926,7 @@ 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' @@ -11784,7 +11992,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -11806,7 +12018,7 @@ 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' @@ -11872,7 +12084,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -12136,7 +12352,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12158,7 +12378,11 @@ components: outputs: - id: UMLS semantic: Procedure - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -12444,7 +12668,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -12466,7 +12694,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -12576,7 +12808,11 @@ components: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12598,7 +12834,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -12664,7 +12904,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -12686,7 +12930,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -12840,7 +13088,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -12906,7 +13158,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -13060,7 +13316,7 @@ 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' @@ -13148,7 +13404,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -13170,7 +13430,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -13280,7 +13544,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -13412,7 +13680,7 @@ 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' @@ -13434,7 +13702,7 @@ 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' @@ -13566,7 +13834,7 @@ 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' @@ -13588,7 +13856,7 @@ 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' @@ -14028,7 +14296,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -14336,7 +14608,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -14424,7 +14700,7 @@ 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' @@ -14446,7 +14722,7 @@ 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' @@ -14512,7 +14788,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -14534,7 +14814,11 @@ components: outputs: - id: UMLS semantic: CellularComponent - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -14556,7 +14840,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14732,7 +15020,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -14820,7 +15112,7 @@ 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' @@ -15304,7 +15596,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15326,7 +15622,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15546,7 +15846,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15678,7 +15982,11 @@ components: outputs: - id: UMLS semantic: GrossAnatomicalStructure - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15700,7 +16008,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -15854,7 +16166,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15876,7 +16192,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15942,7 +16262,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -15964,7 +16288,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16338,7 +16666,11 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -16360,7 +16692,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16646,7 +16982,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -16668,7 +17008,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -16778,7 +17122,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -16800,7 +17148,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -16932,7 +17284,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -16954,7 +17310,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17262,7 +17622,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -17284,7 +17648,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17306,7 +17674,7 @@ 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' @@ -17394,7 +17762,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -17416,7 +17788,7 @@ 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' @@ -17526,7 +17898,7 @@ 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' @@ -17702,7 +18074,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -17724,7 +18100,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17746,7 +18126,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17768,7 +18152,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17790,7 +18178,7 @@ 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' @@ -17812,7 +18200,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -17834,7 +18226,7 @@ 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' @@ -18098,7 +18490,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -18318,7 +18714,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -18340,7 +18740,7 @@ 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' @@ -18362,7 +18762,7 @@ 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' @@ -18450,7 +18850,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -18472,7 +18876,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -18604,7 +19012,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -18626,7 +19038,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -18780,7 +19196,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -18912,7 +19332,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -18978,7 +19402,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -19000,7 +19428,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -19154,7 +19586,7 @@ 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' @@ -19176,7 +19608,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19198,7 +19634,7 @@ 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' @@ -19330,7 +19766,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19484,7 +19924,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -19660,7 +20104,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -19814,7 +20262,11 @@ components: outputs: - id: UMLS semantic: CellularComponent - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -19836,7 +20288,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -19858,7 +20314,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -20232,7 +20692,7 @@ 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' @@ -20276,7 +20736,7 @@ 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' @@ -20386,7 +20846,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -20562,7 +21026,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -20584,7 +21052,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -20936,7 +21408,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -21244,7 +21720,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21266,7 +21746,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -21332,7 +21816,7 @@ 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' @@ -21354,7 +21838,7 @@ 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' @@ -21464,7 +21948,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21530,7 +22018,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -21596,7 +22088,7 @@ 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' @@ -21684,7 +22176,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -21970,7 +22466,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -22102,7 +22602,7 @@ 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' @@ -22124,7 +22624,7 @@ 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' @@ -22146,7 +22646,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22344,7 +22848,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -22388,7 +22896,7 @@ 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' @@ -22454,7 +22962,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -22696,7 +23208,7 @@ 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' @@ -22762,7 +23274,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -22828,7 +23344,7 @@ 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' @@ -22850,7 +23366,11 @@ components: outputs: - id: UMLS semantic: CellularComponent - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22872,7 +23392,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -22894,7 +23418,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -22982,7 +23510,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -23092,7 +23624,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -23136,7 +23672,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -23158,7 +23698,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -23246,7 +23790,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -23510,7 +24058,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -23532,7 +24084,7 @@ 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' @@ -23664,7 +24216,7 @@ 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' @@ -23730,7 +24282,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -23796,7 +24352,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -23862,7 +24422,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -23994,7 +24558,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -24192,7 +24760,7 @@ 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' @@ -24214,7 +24782,7 @@ 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' @@ -24368,7 +24936,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -24412,7 +24984,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24544,7 +25120,11 @@ components: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -24566,7 +25146,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24742,7 +25326,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24940,7 +25528,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -24962,7 +25554,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -25006,7 +25602,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25028,7 +25628,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25160,7 +25764,11 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25182,7 +25790,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25468,7 +26080,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25490,7 +26106,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25534,7 +26154,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25578,7 +26202,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25644,7 +26272,7 @@ 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' @@ -25666,7 +26294,7 @@ 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' @@ -25754,7 +26382,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25776,7 +26408,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25820,7 +26456,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -25864,7 +26504,11 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -25886,7 +26530,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26128,7 +26776,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -26238,7 +26890,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -26260,7 +26916,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -26370,7 +27030,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -26480,7 +27144,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -26920,7 +27588,11 @@ components: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -26942,7 +27614,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27162,7 +27838,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -27228,7 +27908,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27382,7 +28066,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -27404,7 +28092,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -27602,7 +28294,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -27668,7 +28364,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27690,7 +28390,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -27800,7 +28504,7 @@ 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' @@ -27822,7 +28526,7 @@ 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' @@ -27866,7 +28570,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27888,7 +28596,11 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -27932,7 +28644,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -27954,7 +28670,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -28042,7 +28762,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28064,7 +28788,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -28086,7 +28814,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28130,7 +28862,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28196,7 +28932,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -28240,7 +28980,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28262,7 +29006,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28350,7 +29098,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28482,7 +29234,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28548,7 +29304,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -28592,7 +29352,7 @@ 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' @@ -28614,7 +29374,7 @@ 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' @@ -28636,7 +29396,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -28680,7 +29444,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28768,7 +29536,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28878,7 +29650,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28944,7 +29720,11 @@ components: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -28966,7 +29746,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -28988,7 +29772,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -29164,7 +29952,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29208,7 +30000,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29252,7 +30048,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29318,7 +30118,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -29384,7 +30188,7 @@ 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' @@ -29516,7 +30320,7 @@ 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' @@ -29560,7 +30364,7 @@ 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' @@ -29604,7 +30408,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -29758,7 +30566,11 @@ components: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -29780,7 +30592,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30022,7 +30838,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30176,7 +30996,11 @@ components: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -30198,7 +31022,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30462,7 +31290,11 @@ components: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -30484,7 +31316,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30506,7 +31342,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -30528,7 +31368,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -30594,7 +31438,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30770,7 +31618,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -30946,7 +31798,7 @@ 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' @@ -30968,7 +31820,7 @@ 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' @@ -31078,7 +31930,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -31100,7 +31956,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31144,7 +32004,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -31276,7 +32140,11 @@ components: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -31298,7 +32166,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31474,7 +32346,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -31628,7 +32504,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -31738,7 +32618,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31804,7 +32688,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -31980,7 +32868,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -32002,7 +32894,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32046,7 +32942,7 @@ 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' @@ -32420,7 +33316,11 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32442,7 +33342,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32486,7 +33390,7 @@ 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' @@ -32508,7 +33412,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -32530,7 +33438,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -32552,7 +33464,7 @@ 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' @@ -32574,7 +33486,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -32684,7 +33600,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32794,7 +33714,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -32838,7 +33762,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -32860,7 +33788,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -32904,7 +33836,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -33058,7 +33994,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -33102,7 +34042,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33146,7 +34090,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -33256,7 +34204,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33322,7 +34274,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -33432,7 +34388,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33498,7 +34458,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -33652,7 +34616,7 @@ 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' @@ -33674,7 +34638,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33850,7 +34818,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -33938,7 +34910,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34136,7 +35112,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34246,7 +35226,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -34642,7 +35626,7 @@ 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' @@ -34862,7 +35846,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -34994,7 +35982,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35104,7 +36096,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35214,7 +36210,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -35236,7 +36236,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35346,7 +36350,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -35500,7 +36508,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -35544,7 +36556,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -35610,7 +36626,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -35654,7 +36674,11 @@ components: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -35676,7 +36700,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -35808,7 +36836,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36094,7 +37126,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36204,7 +37240,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -36226,7 +37266,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -36248,7 +37292,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -36314,7 +37362,7 @@ 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' @@ -36336,7 +37384,7 @@ 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' @@ -36446,7 +37494,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -36534,7 +37586,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -36556,7 +37612,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36666,7 +37726,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -36820,7 +37884,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -36996,7 +38064,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37084,7 +38156,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37150,7 +38226,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37348,7 +38428,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -37370,7 +38454,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37392,7 +38480,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -37436,7 +38528,11 @@ components: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -37458,7 +38554,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -37612,7 +38712,11 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -37678,7 +38782,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -37700,7 +38808,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -37876,7 +38988,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -37964,7 +39080,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -38228,7 +39348,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -38404,7 +39528,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -38536,7 +39664,7 @@ 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' @@ -38558,7 +39686,7 @@ 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' @@ -38888,7 +40016,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -38932,7 +40064,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -38954,7 +40090,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39108,7 +40248,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39130,7 +40274,7 @@ 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' @@ -39152,7 +40296,7 @@ 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' @@ -39174,7 +40318,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39196,7 +40344,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39328,7 +40480,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -39350,7 +40506,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39416,7 +40576,11 @@ components: outputs: - id: UMLS semantic: PhenotypicFeature - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39438,7 +40602,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39504,7 +40672,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39526,7 +40698,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -39900,7 +41076,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -39922,7 +41102,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40010,7 +41194,7 @@ 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' @@ -40032,7 +41216,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40054,7 +41242,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -40186,7 +41378,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40208,7 +41404,11 @@ components: outputs: - id: UMLS semantic: MolecularActivity - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -40230,7 +41430,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40252,7 +41456,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40406,7 +41614,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40428,7 +41640,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40516,7 +41732,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -40560,7 +41780,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40582,7 +41806,7 @@ 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' @@ -40604,7 +41828,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40626,7 +41854,7 @@ 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' @@ -40824,7 +42052,7 @@ 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' @@ -40890,7 +42118,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -40912,7 +42144,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -40934,7 +42170,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -40956,7 +42196,7 @@ 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' @@ -40978,7 +42218,7 @@ 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' @@ -41264,7 +42504,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -41550,7 +42794,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -41638,7 +42886,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -41726,7 +42978,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -41814,7 +43070,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -42012,7 +43272,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42232,7 +43496,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42254,7 +43522,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42342,7 +43614,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42364,7 +43640,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -42386,7 +43666,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -42452,7 +43736,7 @@ 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' @@ -42606,7 +43890,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42716,7 +44004,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -42738,7 +44030,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -42826,7 +44122,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -42870,7 +44170,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43002,7 +44306,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43024,7 +44332,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43156,7 +44468,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43244,7 +44560,7 @@ 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' @@ -43266,7 +44582,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -43310,7 +44630,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -43618,7 +44942,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -43750,7 +45078,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -43772,7 +45104,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -43816,7 +45152,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -43860,7 +45200,7 @@ 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' @@ -43948,7 +45288,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -44014,7 +45358,7 @@ 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' @@ -44124,7 +45468,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -44322,7 +45670,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -44344,7 +45696,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -44366,7 +45722,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44388,7 +45748,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44432,7 +45796,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -44960,7 +46328,11 @@ components: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -44982,7 +46354,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45026,7 +46402,7 @@ 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' @@ -45070,7 +46446,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -45224,7 +46604,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -45400,7 +46784,11 @@ components: outputs: - id: UMLS semantic: PathologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -45422,7 +46810,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45598,7 +46990,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45620,7 +47016,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -45642,7 +47042,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -45686,7 +47090,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45708,7 +47116,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45752,7 +47164,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -45796,7 +47212,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46214,7 +47634,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -46236,7 +47660,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46302,7 +47730,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46522,7 +47954,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46544,7 +47980,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46698,7 +48138,7 @@ 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' @@ -46720,7 +48160,7 @@ 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' @@ -46742,7 +48182,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46786,7 +48230,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -46918,7 +48366,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -46940,7 +48392,11 @@ components: outputs: - id: UMLS semantic: Protein - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -47028,7 +48484,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -47050,7 +48510,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -47094,7 +48558,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47160,7 +48628,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47424,7 +48896,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47666,7 +49142,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -47710,7 +49190,7 @@ 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' @@ -47776,7 +49256,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48084,7 +49568,11 @@ components: outputs: - id: UMLS semantic: Protein - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -48106,7 +49594,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -48370,7 +49862,7 @@ 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' @@ -48436,7 +49928,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -48524,7 +50020,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -48568,7 +50068,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -48678,7 +50182,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -49030,7 +50538,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49096,7 +50608,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -49118,7 +50634,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49140,7 +50660,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49382,7 +50906,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49448,7 +50976,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -49514,7 +51046,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -49536,7 +51072,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49558,7 +51098,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -49646,7 +51190,11 @@ components: outputs: - id: UMLS semantic: Cell - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -49668,7 +51216,11 @@ components: outputs: - id: UMLS semantic: ChemicalEntity - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -49756,7 +51308,7 @@ 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' @@ -49866,7 +51418,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50064,7 +51620,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50240,7 +51800,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -50328,7 +51892,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50372,7 +51940,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50482,7 +52054,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -50504,7 +52080,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50570,7 +52150,11 @@ components: outputs: - id: UMLS semantic: PhysiologicalProcess - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -50592,7 +52176,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50790,7 +52378,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -50944,7 +52536,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -50988,7 +52584,7 @@ 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' @@ -51010,7 +52606,7 @@ 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' @@ -51076,7 +52672,11 @@ components: outputs: - id: UMLS semantic: Protein - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -51098,7 +52698,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51142,7 +52746,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -51296,7 +52904,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51318,7 +52930,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51406,7 +53022,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -51428,7 +53048,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -51604,7 +53228,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -51736,7 +53364,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -51758,7 +53390,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -51780,7 +53416,7 @@ 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' @@ -51978,7 +53614,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -52066,7 +53706,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -52264,7 +53908,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -52352,7 +54000,7 @@ 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' @@ -52528,7 +54176,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -52616,7 +54268,11 @@ components: outputs: - id: UMLS semantic: Protein - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -52638,7 +54294,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -52660,7 +54320,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -52946,7 +54610,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -52990,7 +54658,7 @@ 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' @@ -53012,7 +54680,7 @@ 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' @@ -53034,7 +54702,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53298,7 +54970,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -53320,7 +54996,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53386,7 +55066,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -53408,7 +55092,11 @@ components: outputs: - id: UMLS semantic: Gene - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -53430,7 +55118,11 @@ components: outputs: - id: UMLS semantic: Protein - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53452,7 +55144,7 @@ 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' @@ -53540,7 +55232,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53584,7 +55280,7 @@ 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' @@ -53606,7 +55302,7 @@ 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' @@ -53782,7 +55478,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53804,7 +55504,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -53914,7 +55618,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -53936,7 +55644,7 @@ 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' @@ -54244,7 +55952,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -54266,7 +55978,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54310,7 +56026,7 @@ 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' @@ -54420,7 +56136,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -54530,7 +56250,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -54794,7 +56518,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -55058,7 +56786,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -55102,7 +56834,11 @@ components: outputs: - id: UMLS semantic: Protein - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -55124,7 +56860,11 @@ components: outputs: - id: UMLS semantic: Polypeptide - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -55300,7 +57040,7 @@ 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' @@ -55322,7 +57062,7 @@ 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' @@ -55564,7 +57304,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -55806,7 +57550,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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' @@ -56048,7 +57796,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -56158,7 +57910,7 @@ 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' @@ -56422,7 +58174,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -56554,7 +58310,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -56774,7 +58534,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -56928,7 +58692,7 @@ 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' @@ -57082,7 +58846,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulates_entity + predicate: affects + qualifiers: + 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' @@ -57302,7 +59070,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -57346,7 +59118,7 @@ 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' @@ -57368,7 +59140,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -57522,7 +59298,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulated_by_entity + predicate: affected_by + qualifiers: + qualified_predicate: caused_by + subject_aspect_qualifier: activity_or_abundance + subject_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-subj' @@ -57566,7 +59346,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -57720,7 +59504,11 @@ components: outputs: - id: UMLS semantic: Disease - predicate: entity_positively_regulates_entity + predicate: affects + qualifiers: + qualified_predicate: causes + object_aspect_qualifier: activity_or_abundance + object_direction_qualifier: increased source: infores:semmeddb response_mapping: $ref: '#/components/x-bte-response-mapping/umls-obj' @@ -57764,7 +59552,7 @@ 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' @@ -57786,7 +59574,7 @@ 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' @@ -57808,7 +59596,7 @@ 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' @@ -57830,7 +59618,7 @@ 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' @@ -57918,7 +59706,7 @@ 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' @@ -58072,7 +59860,11 @@ components: outputs: - id: UMLS semantic: SmallMolecule - predicate: entity_negatively_regulated_by_entity + predicate: affected_by + qualifiers: + 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/version_without_operations.yaml b/semmeddb/version_without_operations.yaml index b2981b91..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: "2.4.8" + 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 04d1fefa..a1d63c8c 100644 --- a/uberon/smartapi.yaml +++ b/uberon/smartapi.yaml @@ -16,7 +16,7 @@ info: component: KP team: - Service Provider - biolink-version: "2.2.13" + biolink-version: "3.1.1" servers: - description: Encrypted Production server url: https://biothings.ncats.io/uberon