Difference between revisions of "Gap-filling-gapfilling solution with meneco draft medium"

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(→‎Automatic reconstruction with AuReMe)
(→‎Collaborative curation)
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** Download this [[MEDIA:Reaction_creator.csv|form]]
 
** Download this [[MEDIA:Reaction_creator.csv|form]]
 
* '''Follow the examples given in the form(s) to correctly share your suggestions'''
 
* '''Follow the examples given in the form(s) to correctly share your suggestions'''
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* Send the filled form(s) to: CONTACT_MAIL
+
* Send the filled form(s) to: gem-aureme@irisa.fr

Revision as of 14:16, 12 January 2018

TISOGEM description

Automatic reconstruction with AuReMe

Model summary: summary

Download AuReMe Input/Output [1]

The automatic reconstruction of Tisocrysis_lutea results to a Genome scale Model containing 2796 reactions, 2745 metabolites, 2728 genes and 1212 pathways. This GeM was obtained based on the following sources:

  • Based on annotation data:
    • Tool: Pathway tools
      • Creation of a metabolic network containing 2568 reactions
  • Based on orthology data:
    • Tool: Pantograph
      • From template CREINHARDTII creation of a metabolic network containing: 558 reactions
      • From template SYNECHOCYSTIS creation of a metabolic network containing: 260 reactions
      • From template ATHALIANA creation of a metabolic network containing: 419 reactions
      • From template ESILICULOSUS creation of a metabolic network containing: 1191 reactions
  • Based on expertise:
      • 314 reaction(s) added
  • Based on gap-filling:
    • Tool: meneco
      • 17 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@irisa.fr
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