Difference between revisions of "Gap-filling-gapfilling solution with meneco draft medium"
From metabolic_network
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== TISOGEM description == | == TISOGEM description == | ||
== Automatic reconstruction with [http://aureme.genouest.org AuReMe] == | == Automatic reconstruction with [http://aureme.genouest.org AuReMe] == | ||
| + | Model Summary: [[MEDIA:Tlutea_final.txt|summary]] | ||
The automatic reconstruction of ''Tisocrysis_lutea'' results to a Genome scale [[MEDIA:Tlutea_lvl3.xml|Model]] containing 2796 reactions, 2745 metabolites, 2728 genes and 1212 pathways. This GeM was obtained based on the following sources: | The automatic reconstruction of ''Tisocrysis_lutea'' results to a Genome scale [[MEDIA:Tlutea_lvl3.xml|Model]] containing 2796 reactions, 2745 metabolites, 2728 genes and 1212 pathways. This GeM was obtained based on the following sources: | ||
* Based on annotation data: | * Based on annotation data: | ||
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[[FILE:venn.png|frameless|border]] | [[FILE:venn.png|frameless|border]] | ||
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== Collaborative curation == | == Collaborative curation == | ||
* Suggest reactions to add or remove: | * Suggest reactions to add or remove: | ||
| − | ** Download this [[MEDIA:Add_delete_reaction.csv| | + | ** Download this [[MEDIA:Add_delete_reaction.csv|form]] |
* Suggest new reactions to create and add: | * Suggest new reactions to create and add: | ||
** Download this [[MEDIA:Reaction_creator.csv|form]] | ** Download this [[MEDIA:Reaction_creator.csv|form]] | ||
| − | * '''Follow the examples given in the form to correctly share your suggestions''' | + | * '''Follow the examples given in the form(s) to correctly share your suggestions''' |
| − | * Send the | + | * Send the filled form(s) to: CONTACT_MAIL |
Revision as of 15:58, 11 January 2018
TISOGEM description
Automatic reconstruction with AuReMe
Model Summary: summary 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
- Tool: Pathway tools
- 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
- Tool: Pantograph
- Based on expertise:
- 314 reaction(s) added
- Based on gap-filling:
- Tool: meneco
- 17 reaction(s) added
- Tool: meneco
