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{{#ask: [[Category:Reaction]] [[reconstruction category::orthology]]
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== EFAEV583GEM description ==
| ?common name
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== Automatic reconstruction with [http://aureme.genouest.org AuReMe] ==
| ?ec number
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Model summary: [[MEDIA:summary.txt|summary]]
| ?reconstruction category
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| ?reconstruction tool
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Download '''AuReMe''' Input/Output [LINK OR MEDIA data]
| ?reconstruction source
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| ?reconstruction comment
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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:
| ?gene associated
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* Based on orthology data:
| ?in pathway
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** Tool: [http://pathtastic.gforge.inria.fr Pantograph]
}}
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*** From template ''E_COLI_SSTR_K12_SUBSTR_MG1655'' creation of a metabolic network containing: 528 reactions
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*** From template ''L_PLANTARUM_WCFS1'' creation of a metabolic network containing: 385 reactions
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*** From template ''B_SUBTILIS_SUBSP_SUBTILIS_STR168'' creation of a metabolic network containing: 463 reactions
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* Based on expertise:
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*** 221 reaction(s) added
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* Based on gap-filling:
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** Tool: [https://pypi.python.org/pypi/meneco meneco]
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*** 50 reaction(s) added
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[[FILE:venn.png|frameless|border]]
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== Collaborative curation ==
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* Suggest reactions to add or remove:
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** Download this [[MEDIA:Add_delete_reaction.csv|form]]
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* Suggest new reactions to create and add:
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** Download this [[MEDIA:Reaction_creator.csv|form]]
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* '''Follow the examples given in the form(s) to correctly share your suggestions'''
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* 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
  • Based on expertise:
      • 221 reaction(s) added
  • Based on gap-filling:
    • Tool: meneco
      • 50 reaction(s) added

Venn.png

Collaborative curation

  • Suggest reactions to add or remove:
  • Suggest new reactions to create and add:
  • Follow the examples given in the form(s) to correctly share your suggestions
  • Send the filled form(s) to: gem-aureme@inria.fr