fix: removed MAR04966 and merged annotations into MAR02818

SysBioChalmers · Jun 27, 2023 · c459bce · c459bce
1 parent 5c594ab
commit c459bce
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Showing 3 changed files with 3 additions and 21 deletions.
diff --git a/data/deprecatedIdentifiers/deprecatedReactions.tsv b/data/deprecatedIdentifiers/deprecatedReactions.tsv
@@ -191,3 +191,4 @@ rxns	rxnKEGGID	rxnBiGGID	rxnEHMNID	rxnHepatoNET1ID	rxnREACTOMEID	rxnRecon3DID	rx
 "MAR03301"	""	""	"RE1516X"	""	""	""	""	"HMR_3301"	"RCR12606"	""	0	""	""	"HMR_3301"
 "MAR03306"	""	""	"RE1517X"	""	""	""	""	"HMR_3306"	"RCR12610"	""	0	""	""	"HMR_3306"
 "MAR03311"	""	""	"RE1518X"	""	""	""	""	"HMR_3311"	"RCR14519"	""	0	""	""	"HMR_3311"
+"MAR04966"	""	"FAOXC101C102x"	""	""	""	"FAOXC101C102x"	""	""	""	""	0	""	""	"FAOXC101C102x"
diff --git a/model/Human-GEM.yml b/model/Human-GEM.yml
@@ -231478,7 +231478,7 @@
       - rxnNotes: ""
       - rxnFrom: "Recon3D"
       - eccodes: "1.3.99.13"
-      - references: "PMID:10407780;PMID:11356167;PMID:8973539"
+      - references: "PMID:10407780;PMID:11356167;PMID:8973539;PMID:18536048;PMID:17458872"
       - subsystem:
           - "Fatty acid oxidation"
       - confidence_score: 0
@@ -240479,24 +240479,6 @@
       - subsystem:
           - "Exchange/demand reactions"
       - confidence_score: 0
-    - !!omap
-      - id: "MAR04966"
-      - name: "Fatty Acid Beta Oxidation (C10:1->C10:2), Peroxisomal"
-      - metabolites: !!omap
-          - MAM00678x: 1
-          - MAM00980x: -1
-          - MAM02041x: 1
-          - MAM02630x: -1
-      - lower_bound: 0
-      - upper_bound: 1000
-      - gene_reaction_rule: "ENSG00000161533"
-      - rxnNotes: ""
-      - rxnFrom: "Recon3D"
-      - eccodes: ""
-      - references: "PMID:18536048;PMID:17458872"
-      - subsystem:
-          - "Fatty acid oxidation"
-      - confidence_score: 0
     - !!omap
       - id: "MAR04967"
       - name: "Fatty Acid Beta Oxidation (C10:1->C8), Mitochondrial"

diff --git a/model/reactions.tsv b/model/reactions.tsv
@@ -8777,7 +8777,7 @@ rxns	rxnKEGGID	rxnBiGGID	rxnEHMNID	rxnHepatoNET1ID	rxnREACTOMEID	rxnRecon3DID	rx
 "MAR02804"	""	"RE1516X"	"RE1516X"	""	""	"RE1516X"	""	"HMR_3301"	"RCR12606"	""	0	""	""	"RE1516X;HMR_3301"
 "MAR02808"	""	"RE1517X"	"RE1517X"	""	""	"RE1517X"	""	"HMR_3306"	"RCR12610"	""	0	""	""	"RE1517X;HMR_3306;MAR00306"
 "MAR02810"	""	"RE1518X"	"RE1518X"	""	""	"RE1518X"	""	"HMR_3311"	"RCR14519"	""	0	""	""	"RE1518X;HMR_3311;MAR03311"
-"MAR02818"	""	"RE1519X"	""	""	""	"RE1519X"	""	""	""	""	0	""	""	"RE1519X"
+"MAR02818"	""	"RE1519X;FAOXC101C102x"	""	""	""	"RE1519X;FAOXC101C102x"	""	""	""	""	0	""	""	"RE1519X;FAOXC101C102x;MAR04966"
 "MAR02820"	""	"RE1525C"	""	""	""	"RE1525C"	"MNXR103515"	""	""	""	0	""	""	"RE1525C"
 "MAR02826"	""	"RE1526C"	""	""	""	"RE1526C"	"MNXR103516"	""	""	""	0	""	""	"RE1526C"
 "MAR02828"	""	"RE1527C"	""	""	""	"RE1527C"	"MNXR103517"	""	""	""	0	""	""	"RE1527C"
@@ -9284,7 +9284,6 @@ rxns	rxnKEGGID	rxnBiGGID	rxnEHMNID	rxnHepatoNET1ID	rxnREACTOMEID	rxnRecon3DID	rx
 "MAR04943"	""	"EX_ivcrn_e"	""	""	""	"EX_ivcrn[e]"	"MNXR98685"	""	""	""	0	""	""	"EX_ivcrn[e]"
 "MAR04950"	""	"EX_tetdec2crn_e"	""	""	""	"EX_tetdec2crn[e]"	""	""	""	""	0	""	""	"EX_tetdec2crn[e]"
 "MAR04965"	""	"EX_tetdece1crn_e"	""	""	""	"EX_tetdece1crn[e]"	""	""	""	""	0	""	""	"EX_tetdece1crn[e]"
-"MAR04966"	""	"FAOXC101C102x"	""	""	""	"FAOXC101C102x"	""	""	""	""	0	""	""	"FAOXC101C102x"
 "MAR04967"	""	"FAOXC101C8m"	""	""	""	"FAOXC101C8m"	""	""	""	""	0	""	""	"FAOXC101C8m"
 "MAR04968"	""	"FAOXC101C8x"	""	""	""	"FAOXC101C8x"	""	""	""	""	0	""	""	"FAOXC101C8x"
 "MAR04970"	""	"FAOXC102C101m"	""	""	""	"FAOXC102C101m"	""	""	""	""	0	""	""	"FAOXC102C101m"