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fix-GPR curation for PPP, TCA and Pyruvate metabolism #915

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merged 3 commits into from
Dec 17, 2024
Merged

fix-GPR curation for PPP, TCA and Pyruvate metabolism #915

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8de1c59
fix-GPR_curation_for_PPP_TCA_Pyruvate_metabolism
JHL-452b Nov 7, 2024
6de11ff
chore: add macaw test result
JHL-452b Nov 7, 2024
0f3db93
Merge remote-tracking branch 'origin/develop' into Fix-PPP-TCA-and-Py…
edkerk Dec 17, 2024
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34 changes: 17 additions & 17 deletions model/Human-GEM.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -70005,7 +70005,7 @@
- MAM02819c: 1
- lower_bound: 0
- upper_bound: 1000
- gene_reaction_rule: "ENSG00000166816 or ENSG00000182224"
- gene_reaction_rule: "ENSG00000166816"
- rxnNotes: ""
- rxnFrom: "HMRdatabase"
- eccodes: "1.1.2.4"
Expand Down Expand Up @@ -70297,7 +70297,7 @@
- MAM02553c: -1
- lower_bound: -1000
- upper_bound: 1000
- gene_reaction_rule: "ENSG00000147576 or ENSG00000172955 or ENSG00000187758 or ENSG00000196344 or ENSG00000196616 or ENSG00000197894 or ENSG00000198099 or ENSG00000248144"
- gene_reaction_rule: "ENSG00000147576 or ENSG00000172955 or ENSG00000187758 or ENSG00000196344 or ENSG00000197894 or ENSG00000198099 or ENSG00000248144"
- rxnNotes: ""
- rxnFrom: "HMRdatabase"
- eccodes: "1.1.1.1"
Expand All @@ -70317,7 +70317,7 @@
- MAM02553c: 1
- lower_bound: 0
- upper_bound: 1000
- gene_reaction_rule: "ENSG00000006534 or ENSG00000072210 or ENSG00000108602 or ENSG00000132746 or ENSG00000143149 or ENSG00000164904 or ENSG00000184254"
- gene_reaction_rule: "ENSG00000006534 or ENSG00000072210 or ENSG00000108602 or ENSG00000132746 or ENSG00000143149 or ENSG00000164904"
- rxnNotes: ""
- rxnFrom: "HMRdatabase"
- eccodes: "1.2.1.4;1.2.1.5"
Expand Down Expand Up @@ -70357,7 +70357,7 @@
- MAM02553m: 1
- lower_bound: 0
- upper_bound: 1000
- gene_reaction_rule: "ENSG00000072210 or ENSG00000111275 or ENSG00000137124 or ENSG00000143149 or ENSG00000164904"
- gene_reaction_rule: "ENSG00000111275 or ENSG00000137124 or ENSG00000143149 or ENSG00000164904"
- rxnNotes: ""
- rxnFrom: "HMRdatabase"
- eccodes: "1.2.1.3"
Expand All @@ -70376,7 +70376,7 @@
- MAM02771c: -1
- lower_bound: 0
- upper_bound: 1000
- gene_reaction_rule: "ENSG00000147576 or ENSG00000172955 or ENSG00000180011 or ENSG00000187758 or ENSG00000196344 or ENSG00000196616 or ENSG00000197894 or ENSG00000198099 or ENSG00000248144"
- gene_reaction_rule: "ENSG00000147576 or ENSG00000172955 or ENSG00000180011 or ENSG00000187758 or ENSG00000196344 or ENSG00000197894 or ENSG00000198099 or ENSG00000248144"
- rxnNotes: ""
- rxnFrom: "HMRdatabase"
- eccodes: ""
Expand All @@ -70395,7 +70395,7 @@
- MAM02771c: -1
- lower_bound: 0
- upper_bound: 1000
- gene_reaction_rule: "ENSG00000147576 or ENSG00000172955 or ENSG00000180011 or ENSG00000187758 or ENSG00000196344 or ENSG00000196616 or ENSG00000197894 or ENSG00000198099 or ENSG00000248144"
- gene_reaction_rule: "ENSG00000147576 or ENSG00000172955 or ENSG00000180011 or ENSG00000187758 or ENSG00000196344 or ENSG00000197894 or ENSG00000198099 or ENSG00000248144"
- rxnNotes: ""
- rxnFrom: "HMRdatabase"
- eccodes: ""
Expand Down Expand Up @@ -70471,7 +70471,7 @@
- MAM02819c: 1
- lower_bound: 0
- upper_bound: 1000
- gene_reaction_rule: "ENSG00000166816 or ENSG00000182224"
- gene_reaction_rule: "ENSG00000182224"
- rxnNotes: ""
- rxnFrom: "HMRdatabase"
- eccodes: "1.1.2.4"
Expand All @@ -70488,11 +70488,11 @@
- MAM02751c: 1
- lower_bound: 0
- upper_bound: 1000
- gene_reaction_rule: "ENSG00000148090"
- gene_reaction_rule: ""
- rxnNotes: ""
- rxnFrom: "HMRdatabase"
- eccodes: ""
- references: ""
- references: "PMID: 25709564"
- subsystem:
- "Pyruvate metabolism"
- confidence_score: 0
Expand Down Expand Up @@ -71282,7 +71282,7 @@
- MAM02884c: -1
- lower_bound: 0
- upper_bound: 1000
- gene_reaction_rule: "ENSG00000067057 or ENSG00000141959 or ENSG00000152556"
- gene_reaction_rule: "ENSG00000067057 or ENSG00000141959"
- rxnNotes: ""
- rxnFrom: "HMRdatabase"
- eccodes: "2.7.1.11"
Expand Down Expand Up @@ -71320,7 +71320,7 @@
- MAM03166c: 1
- lower_bound: -1000
- upper_bound: 1000
- gene_reaction_rule: "ENSG00000138030"
- gene_reaction_rule: ""
- rxnNotes: ""
- rxnFrom: "HMRdatabase"
- eccodes: "2.7.1.3"
Expand Down Expand Up @@ -71429,7 +71429,7 @@
- MAM02553r: -1
- lower_bound: -1000
- upper_bound: 1000
- gene_reaction_rule: "ENSG00000049239 or ENSG00000130313"
- gene_reaction_rule: "ENSG00000049239"
- rxnNotes: ""
- rxnFrom: "HMRdatabase"
- eccodes: "3.1.1.31"
Expand Down Expand Up @@ -94150,7 +94150,7 @@
- MAM02661x: 1
- lower_bound: 0
- upper_bound: 1000
- gene_reaction_rule: "ENSG00000101323 or ENSG00000116882"
- gene_reaction_rule: "ENSG00000101323"
- rxnNotes: ""
- rxnFrom: "HMRdatabase"
- eccodes: "1.1.3.15"
Expand All @@ -94168,7 +94168,7 @@
- MAM02007x: 1
- lower_bound: 0
- upper_bound: 1000
- gene_reaction_rule: "ENSG00000101323 or ENSG00000116882"
- gene_reaction_rule: "ENSG00000101323"
- rxnNotes: ""
- rxnFrom: "HMRdatabase"
- eccodes: "1.1.3.15"
Expand Down Expand Up @@ -94242,7 +94242,7 @@
- MAM02553c: 1
- lower_bound: 0
- upper_bound: 1000
- gene_reaction_rule: "ENSG00000006534 or ENSG00000072210 or ENSG00000108602 or ENSG00000132746 or ENSG00000143149 or ENSG00000164904 or ENSG00000184254"
- gene_reaction_rule: "ENSG00000006534 or ENSG00000072210 or ENSG00000108602 or ENSG00000132746 or ENSG00000143149 or ENSG00000164904"
- rxnNotes: ""
- rxnFrom: "HMRdatabase"
- eccodes: "1.2.1.4;1.2.1.5"
Expand Down Expand Up @@ -94280,7 +94280,7 @@
- MAM02553m: 1
- lower_bound: 0
- upper_bound: 1000
- gene_reaction_rule: "ENSG00000072210 or ENSG00000111275 or ENSG00000137124 or ENSG00000143149 or ENSG00000164904"
- gene_reaction_rule: "ENSG00000111275 or ENSG00000137124 or ENSG00000143149 or ENSG00000164904"
- rxnNotes: ""
- rxnFrom: "HMRdatabase"
- eccodes: "1.2.1.3"
Expand Down Expand Up @@ -302590,7 +302590,7 @@
- MAM02884c: 1
- lower_bound: 0
- upper_bound: 1000
- gene_reaction_rule: "ENSG00000130957 or ENSG00000165140"
- gene_reaction_rule: ""
- rxnNotes: "https://doi.org/10.1007/BF02702726"
- rxnFrom: ""
- eccodes: "3.1.3.11"
Expand Down
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