Difference between revisions of "Ec-11 002430"
From metabolic_network
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== ECTOGEM description == | == ECTOGEM description == | ||
== Automatic reconstruction with [http://aureme.genouest.org AuReMe] == | == Automatic reconstruction with [http://aureme.genouest.org AuReMe] == | ||
| − | The automatic reconstruction of ''Ectocarpus_Siliculosus'' results to a Genome scale Model containing 1977 reactions, 2132 metabolites, 2281 genes and 1101 pathways. This GeM was obtained based on the following sources: | + | Model summary: [[MEDIA:ESiliculosus_final.txt|summary]] |
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| + | Download '''AuReMe''' Input/Output [https://mybox.inria.fr data] | ||
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| + | The automatic reconstruction of ''Ectocarpus_Siliculosus'' results to a Genome scale [[MEDIA:ESiliculosus_final_lvl3.xml|Model]] containing 1977 reactions, 2132 metabolites, 2281 genes and 1101 pathways. This GeM was obtained based on the following sources: | ||
* Based on annotation data: | * Based on annotation data: | ||
** Tool: [http://bioinformatics.ai.sri.com/ptools/ Pathway tools] | ** Tool: [http://bioinformatics.ai.sri.com/ptools/ Pathway tools] | ||
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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 15:11, 11 January 2018
ECTOGEM description
Automatic reconstruction with AuReMe
Model summary: summary
Download AuReMe Input/Output data
The automatic reconstruction of Ectocarpus_Siliculosus results to a Genome scale Model containing 1977 reactions, 2132 metabolites, 2281 genes and 1101 pathways. This GeM was obtained based on the following sources:
- Based on annotation data:
- Tool: Pathway tools
- Creation of a metabolic network containing 1661 reactions
- Tool: Pathway tools
- Based on orthology data:
- Tool: Pantograph
- From template ARAGEM creation of a metabolic network containing: 440 reactions
- Tool: Pantograph
- Based on expertise:
- 65 reaction(s) added
- Based on gap-filling:
- Tool: meneco
- 85 reaction(s) added
- Tool: meneco
