diff --git a/data/deprecatedIdentifiers/deprecatedReactions.tsv b/data/deprecatedIdentifiers/deprecatedReactions.tsv index f4b34adf..30044d5d 100644 --- a/data/deprecatedIdentifiers/deprecatedReactions.tsv +++ b/data/deprecatedIdentifiers/deprecatedReactions.tsv @@ -241,3 +241,5 @@ rxns rxnKEGGID rxnBiGGID rxnEHMNID rxnHepatoNET1ID rxnREACTOMEID rxnRecon3DID rx "MAR07790" "" "FADtx" "" "" "" "FADtx" "MNXR99217" "HMR_7790" "RCR20203" "" 0 "" "" "HMR_7790" "MAR08564" "" "KYNAKGAT" "" "" "" "KYNAKGAT" "MNXR100948" "HMR_8564" "RCR11356" "" 0 "" "" "HMR_8564" "MAR08565" "R03445" "KYNATESYN" "" "" "" "KYNATESYN" "MNXR100949" "HMR_8565" "RCR11357" "" 0 "" "RHEA:42452" "HMR_8565" +"MAR01483" "" "LIPOti" "" "" "" "LIPOti" "MNXR101093" "" "" "" 0 "" "" "LIPOti" +"MAR06406" "" "LIPOti" "RT1089" "" "" "" "MNXR101093" "HMR_6406" "RCR41534" "" 0 "" "" "HMR_6406" diff --git a/model/Human-GEM.yml b/model/Human-GEM.yml index 1472f093..89685050 100644 --- a/model/Human-GEM.yml +++ b/model/Human-GEM.yml @@ -188389,29 +188389,6 @@ - subsystem: - "Transport reactions" - confidence_score: 0 - - !!omap - - id: "MAR06406" - - name: "" - - metabolites: !!omap - - MAM01285c: 1 - - MAM01371c: -1 - - MAM02039c: 1 - - MAM02040c: -1 - - MAM02394c: 1 - - MAM02394e: -1 - - MAM02519c: 2 - - MAM02519e: -2 - - MAM02751c: 1 - - lower_bound: 0 - - upper_bound: 1000 - - gene_reaction_rule: "ENSG00000138074" - - rxnNotes: "" - - rxnFrom: "HMRdatabase" - - eccodes: "" - - references: "PMID:16415531" - - subsystem: - - "Transport reactions" - - confidence_score: 0 - !!omap - id: "MAR06424" - name: "" @@ -194172,7 +194149,7 @@ - rxnNotes: "" - rxnFrom: "HMRdatabase" - eccodes: "" - - references: "" + - references: "PMID:9516450;PMID:10329687;PMID:15561972" - subsystem: - "Transport reactions" - confidence_score: 0 @@ -224010,29 +223987,6 @@ - subsystem: - "Fatty acid oxidation" - confidence_score: 0 - - !!omap - - id: "MAR01483" - - name: "Transport of Lipoate via Sodium Symport" - - metabolites: !!omap - - MAM01285c: 1 - - MAM01371c: -1 - - MAM02039c: 1 - - MAM02040c: -1 - - MAM02394c: 1 - - MAM02394e: -1 - - MAM02519c: 1 - - MAM02519e: -1 - - MAM02751c: 1 - - lower_bound: 0 - - upper_bound: 1000 - - gene_reaction_rule: "ENSG00000138074" - - rxnNotes: "" - - rxnFrom: "Recon3D" - - eccodes: "" - - references: "PMID:10329687;PMID:10334869;PMID:12646417;PMID:15561972;PMID:9516450" - - subsystem: - - "Transport reactions" - - confidence_score: 0 - !!omap - id: "MAR01485" - name: "Transport of L-Lactate via Diffusion, Mitochondrial" diff --git a/model/reactions.tsv b/model/reactions.tsv index 7ec1a1fb..926f2dcf 100644 --- a/model/reactions.tsv +++ b/model/reactions.tsv @@ -6253,7 +6253,6 @@ rxns rxnKEGGID rxnBiGGID rxnEHMNID rxnHepatoNET1ID rxnREACTOMEID rxnRecon3DID rx "MAR06383" "" "HOMt4" "" "r2480" "" "" "MNXR100677" "HMR_6383" "RCR41531" "2.A.18.6.8" 0 "" "" "HMR_6383" "MAR06384" "" "HISt4" "" "r2481" "" "HISSNAT5tc" "MNXR100646" "HMR_6384" "RCR41532" "2.A.18.6.2" 0 "" "" "HMR_6384" "MAR06392" "" "" "" "r2505" "" "r2505" "MNXR106316" "HMR_6392" "RCR41533" "3.A.1.208.8" 0 "" "" "HMR_6392" -"MAR06406" "" "LIPOti" "RT1089" "" "" "" "MNXR101093" "HMR_6406" "RCR41534" "" 0 "" "" "HMR_6406" "MAR06424" "" "AVITE2t" "RT1352" "" "" "AVITE2t" "MNXR96147" "HMR_6424" "RCR40703" "" 0 "" "" "HMR_6424" "MAR06439" "" "" "" "" "" "HMR_6439" "" "HMR_6439" "RCR40704" "" 0 "" "" "HMR_6439" "MAR06462" "" "" "" "" "" "YVITEt" "" "HMR_6462" "RCR40705" "" 0 "" "" "HMR_6462" @@ -6587,7 +6586,7 @@ rxns rxnKEGGID rxnBiGGID rxnEHMNID rxnHepatoNET1ID rxnREACTOMEID rxnRecon3DID rx "MAR09605" "" "" "" "" "" "HMR_9605" "" "HMR_9605" "RCR41621" "" 0 "" "" "HMR_9605" "MAR09606" "" "" "" "" "" "GLYSNAT5tc" "" "HMR_9606" "RCR41622" "" 0 "" "" "HMR_9606" "MAR09607" "" "" "" "" "" "HMR_9607" "" "HMR_9607" "RCR41623" "" 0 "" "" "HMR_9607" -"MAR09608" "" "" "" "" "" "HMR_9608" "" "HMR_9608" "RCR41624" "" 0 "" "" "HMR_9608" +"MAR09608" "" "LIPOti" "RT1089" "" "" "HMR_9608;LIPOti" "MNXR101093" "HMR_9608;HMR_6406" "RCR41624;RCR41534" "" 0 "RHEA:73380" "RHEA:73379" "HMR_9608;LIPOti;HMR_6406;MAR01483;MAR06406" "MAR09609" "" "" "" "" "" "HMR_9609" "" "HMR_9609" "RCR41625" "" 0 "" "" "HMR_9609" "MAR09610" "" "" "" "" "" "HMR_9610" "" "HMR_9610" "RCR41626" "" 0 "" "" "HMR_9610" "MAR09611" "" "" "" "" "" "INSTt2r" "" "HMR_9611" "RCR40899" "" 0 "" "" "HMR_9611" @@ -8375,7 +8374,6 @@ rxns rxnKEGGID rxnBiGGID rxnEHMNID rxnHepatoNET1ID rxnREACTOMEID rxnRecon3DID rx "MAR01480" "" "LEUt5m" "" "" "" "LEUt5m" "MNXR101057" "" "" "" 0 "" "" "LEUt5m" "MAR01481" "" "LGNCCPT2" "" "" "" "LGNCCPT2" "MNXR101063" "" "" "" 0 "" "" "LGNCCPT2" "MAR01482" "" "LGNCCRNt" "" "" "" "LGNCCRNt" "MNXR101064" "" "" "" 0 "" "" "LGNCCRNt" -"MAR01483" "" "LIPOti" "" "" "" "LIPOti" "MNXR101093" "" "" "" 0 "" "" "LIPOti" "MAR01485" "" "L_LACtcm" "" "" "" "L_LACtcm" "MNXR100999" "" "" "" 0 "" "" "L_LACtcm" "MAR01486" "" "LNELDCCRNt" "" "" "" "LNELDCCRNt" "MNXR101102" "" "" "" 0 "" "" "LNELDCCRNt" "MAR01487" "" "LNLCCRNt" "" "" "" "LNLCCRNt" "MNXR101106" "" "" "" 0 "" "" "LNLCCRNt"