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| − | + | == EFAEV583GEM description == | |
| − | | | + | == Automatic reconstruction with [http://aureme.genouest.org AuReMe] == |
| − | | | + | Model summary: [[MEDIA:summary.txt|summary]] |
| − | + | ||
| + | Download '''AuReMe''' Input/Output [LINK OR MEDIA data] | ||
| + | |||
| + | The automatic reconstruction of ''Enterococcus_faecalis_str_v583'' results to a Genome scale [[MEDIA:model.xml|Model]] containing 1117 reactions, 911 metabolites, 610 genes and 106 pathways. This GeM was obtained based on the following sources: | ||
| + | * Based on orthology data: | ||
| + | ** Tool: [http://pathtastic.gforge.inria.fr Pantograph] | ||
| + | *** From template ''E_COLI_SSTR_K12_SUBSTR_MG1655'' creation of a metabolic network containing: 528 reactions | ||
| + | *** From template ''L_PLANTARUM_WCFS1'' creation of a metabolic network containing: 385 reactions | ||
| + | *** From template ''B_SUBTILIS_SUBSP_SUBTILIS_STR168'' creation of a metabolic network containing: 463 reactions | ||
| + | * Based on expertise: | ||
| + | *** 221 reaction(s) added | ||
| + | * Based on gap-filling: | ||
| + | ** Tool: [https://pypi.python.org/pypi/meneco meneco] | ||
| + | *** 50 reaction(s) added | ||
| + | |||
| + | [[FILE:venn.png|frameless|border]] | ||
| + | |||
| + | == Collaborative curation == | ||
| + | * Suggest reactions to add or remove: | ||
| + | ** Download this [[MEDIA:Add_delete_reaction.csv|form]] | ||
| + | * Suggest new reactions to create and add: | ||
| + | ** Download this [[MEDIA:Reaction_creator.csv|form]] | ||
| + | * '''Follow the examples given in the form(s) to correctly share your suggestions''' | ||
| + | * Send the filled form(s) to: gem-aureme@inria.fr | ||
Latest revision as of 15:59, 21 March 2018
EFAEV583GEM description
Automatic reconstruction with AuReMe
Model summary: summary
Download AuReMe Input/Output [LINK OR MEDIA data]
The automatic reconstruction of Enterococcus_faecalis_str_v583 results to a Genome scale Model containing 1117 reactions, 911 metabolites, 610 genes and 106 pathways. This GeM was obtained based on the following sources:
- Based on orthology data:
- Tool: Pantograph
- From template E_COLI_SSTR_K12_SUBSTR_MG1655 creation of a metabolic network containing: 528 reactions
- From template L_PLANTARUM_WCFS1 creation of a metabolic network containing: 385 reactions
- From template B_SUBTILIS_SUBSP_SUBTILIS_STR168 creation of a metabolic network containing: 463 reactions
- Tool: Pantograph
- Based on expertise:
- 221 reaction(s) added
- Based on gap-filling:
- Tool: meneco
- 50 reaction(s) added
- Tool: meneco
