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fix-bug: update the reversibility of reaction r_0446 #290

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Dec 27, 2021
Merged

fix-bug: update the reversibility of reaction r_0446 #290

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2 changes: 1 addition & 1 deletion README.md
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Original file line number Diff line number Diff line change
Expand Up @@ -35,7 +35,7 @@ This repository contains the current consensus genome-scale metabolic model of _
|:-------:|:--------------:|:---------:|:----------:|:-----:|
|_Saccharomyces cerevisiae_|[Yeast 7.6](https://sourceforge.net/projects/yeast/)|4058|2742|1150|

**Last update:** 2021-06-24
**Last update:** 2021-12-17

## Installation

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2 changes: 1 addition & 1 deletion model/yeast-GEM.txt
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Expand Up @@ -340,7 +340,7 @@ r_0441 s_0714[c] + 2 s_0794[c] + s_1203[c] -> s_0717[c] + s_1198[c] YLR011W
r_0442 s_0714[c] + 2 s_0794[c] + s_1212[c] -> s_0717[c] + s_1207[c] YLR011W 0.00 1000.00 0.00
r_0443 s_0721[c] + s_0750[c] + s_1198[c] -> s_0794[c] + s_1203[c] + s_1421[c] YDL168W 0.00 1000.00 0.00
r_0445 s_0722[c] + s_1198[c] -> s_0456[c] + s_1203[c] YOR388C 0.00 1000.00 0.00
r_0446 s_0434[c] + s_0722[c] + s_1487[c] <=> s_0120[c] + s_0394[c] + s_1322[c] YGR204W -1000.00 1000.00 0.00
r_0446 s_0434[c] + s_0722[c] + s_1487[c] -> s_0120[c] + s_0394[c] + s_1322[c] YGR204W 0.00 1000.00 0.00
r_0447 s_0437[m] + s_0724[m] + s_1488[m] <=> s_0121[m] + s_0397[m] + s_1326[m] YBR084W -1000.00 1000.00 0.00
r_0448 s_0442[c] + s_0803[c] -> s_0557[c] + s_1322[c] ( YLR345W or YJL155C ) 0.00 1000.00 0.00
r_0449 s_0555[c] + s_0803[c] -> s_0557[c] + s_1322[c] YLR377C 0.00 1000.00 0.00
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5 changes: 4 additions & 1 deletion model/yeast-GEM.xml
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Expand Up @@ -75460,7 +75460,7 @@
<fbc:geneProductRef fbc:geneProduct="G_YOR388C"/>
</fbc:geneProductAssociation>
</reaction>
<reaction metaid="r_0446" sboTerm="SBO:0000176" id="r_0446" name="formate-tetrahydrofolate ligase" reversible="true" fast="false" fbc:lowerFluxBound="FB1N1000" fbc:upperFluxBound="FB5N1000">
<reaction metaid="r_0446" sboTerm="SBO:0000176" id="r_0446" name="formate-tetrahydrofolate ligase" reversible="false" fast="false" fbc:lowerFluxBound="FB3N0" fbc:upperFluxBound="FB5N1000">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Confidence Level: 3</p>
Expand Down Expand Up @@ -218932,5 +218932,8 @@
<fbc:geneProduct metaid="G_YPL095C" sboTerm="SBO:0000243" fbc:id="G_YPL095C" fbc:name="EEB1" fbc:label="EEB1"/>
<fbc:geneProduct metaid="G_YGR015C" sboTerm="SBO:0000243" fbc:id="G_YGR015C" fbc:name="EAT1" fbc:label="EAT1"/>
</fbc:listOfGeneProducts>
<groups:listOfGroups>
<groups:group sboTerm="SBO:0000633" groups:id="group1" groups:kind="partonomy"/>
</groups:listOfGroups>
</model>
</sbml>
4 changes: 2 additions & 2 deletions model/yeast-GEM.yml
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Expand Up @@ -3,7 +3,7 @@
- metaData:
id: "yeastGEM_v8.5.0"
name: "The Consensus Genome-Scale Metabolic Model of Yeast"
date: "2021-07-02"
date: "2021-12-17"
- metabolites:
- !!omap
- id: "s_0001"
Expand Down Expand Up @@ -37550,7 +37550,7 @@
- s_0722: -1
- s_1322: 1
- s_1487: -1
- lower_bound: -1000
- lower_bound: 0
- upper_bound: 1000
- gene_reaction_rule: "YGR204W"
- eccodes:
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