Published May 30, 2018
| Version v8.1.0
Software
Open
SysBioChalmers/yeast-GEM: yeast 8.1.0
Description
- New features:
- SLIME reactions added to the model using SLIMEr, to properly account for constraints on lipid metabolism (fixes #21):
- SLIME rxns replace old ISA rxns for lumping lipids. They create 2 types of lipid pseudometabolites: backbones and acyl chains.
- There are now 3 lipid pseudoreactions: 1 constrains backbones, 1 constrains acyl chains, 1 merges both.
- SLIME reactions added to the model using SLIMEr, to properly account for constraints on lipid metabolism (fixes #21):
- Fixes:
- All metabolite formulas made compliant with SBML (fixes #19). Model is now a valid SBML object.
- Biomass composition was rescaled to experimental data from Lahtvee et al. 2017, including protein and RNA content, trehalose and glycogen concentrations, lipid profile and FAME data. Biomass was fitted to add up to 1 g/gDW by rescaling total carbohydrate content (unmeasured).
- Refactoring:
- Organized all files in
ComplementaryData
- Organized all files in
Files
yeast-GEM-v8.1.0.zip
Files
(5.2 MB)
| Name | Size | Download all |
|---|---|---|
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md5:105665675aa27d2065ec6c243f257ae1
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5.2 MB | Preview Download |
Additional details
Related works
- Is supplement to
- https://github.com/SysBioChalmers/yeast-GEM/tree/v8.1.0 (URL)