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| − | == EFAEV583GEM description ==
| + | {{#ask: [[Category:Reaction]] [[reconstruction source::manual-4_newreactions]] |
| − | == Automatic reconstruction with [http://aureme.genouest.org AuReMe] ==
| + | | ?COMMON NAME |
| − | Model summary: [[MEDIA:efaecalisV583_final.txt|summary]]
| + | | ?ec number |
| − | | + | | ?reconstruction category |
| − | Download '''AuReMe''' Input/Output [https://mybox.inria.fr/f/6e73f7ad41/?raw=1 data]
| + | | ?reconstruction tool |
| − | | + | | ?reconstruction source |
| − | The automatic reconstruction of ''Enterococcus_faecalis_str_v583'' results to a Genome scale [[MEDIA:efaecalisV583_final_lvl3.xml|Model]] containing 1117 reactions, 911 metabolites, 610 genes and 106 pathways. This GeM was obtained based on the following sources:
| + | | ?reconstruction comment |
| − | * Based on orthology data:
| + | | ?gene associated |
| − | ** Tool: [http://pathtastic.gforge.inria.fr Pantograph]
| + | | ?in pathway |
| − | *** 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
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| − | | + | |
| − | [[FILE:venn.png|frameless|border]]
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| − | | + | |
| − | == 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
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