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(Created page with "Category:metabolite == Metabolite 23S-rRNA-2-methyladenine2503 == * common-name: ** 2-methyladenine2503 in 23s rrna == Reaction(s) known to consume the compound == == Reac...") |
(Created page with "== description == == Automatic reconstruction with [http://aureme.genouest.org AuReMe] == Model summary: summary Download '''AuReMe''' Input/Output [LI...") |
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| − | [[ | + | == description == |
| − | + | == Automatic reconstruction with [http://aureme.genouest.org AuReMe] == | |
| − | * | + | Model summary: [[MEDIA:summary.txt|summary]] |
| − | ** | + | |
| − | + | Download '''AuReMe''' Input/Output [LINK OR MEDIA data] | |
| − | == | + | |
| − | * [[ | + | The automatic reconstruction of ''Ruminococcus flavefaciens'' results to a Genome scale [[MEDIA:model.xml|Model]] containing 1453 reactions, 1373 metabolites, 828 genes and 756 pathways. This GeM was obtained based on the following sources: |
| − | + | * Based on annotation data: | |
| − | + | ** Creation of a metabolic network containing 919 reactions | |
| + | * Based on orthology data: | ||
| + | ** Creation of a global metabolic network containing 676 reactions | ||
| + | *** From template ''faecalibacteriumprausnitziia2-165_heinken2014'' creation of a metabolic network containing: 315 reactions | ||
| + | *** From template ''l_plantarum_wcfs1'' creation of a metabolic network containing: 211 reactions | ||
| + | *** From template ''bthetaiotaomicron_heinken2013'' creation of a metabolic network containing: 296 reactions | ||
| + | *** From template ''ecoli'' creation of a metabolic network containing: 448 reactions | ||
| + | *** From template ''bifidobacteriumadolescentisl2-32'' creation of a metabolic network containing: 214 reactions | ||
| + | * Based on expertise: | ||
| + | ** 118 reaction(s) added | ||
| + | |||
| + | *List of tools used: | ||
| + | ** Tool: [http://bioinformatics.ai.sri.com/ptools/ PathwayTools] | ||
| + | ** Tool: [http://pathtastic.gforge.inria.fr Pantograph] | ||
| + | |||
| + | [[FILE:venn.png|frameless|border]] | ||
| + | |||
| + | |||
| + | == 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[at]inriaa.fr | ||
Latest revision as of 17:46, 15 January 2021
description
Automatic reconstruction with AuReMe
Model summary: summary
Download AuReMe Input/Output [LINK OR MEDIA data]
The automatic reconstruction of Ruminococcus flavefaciens results to a Genome scale Model containing 1453 reactions, 1373 metabolites, 828 genes and 756 pathways. This GeM was obtained based on the following sources:
- Based on annotation data:
- Creation of a metabolic network containing 919 reactions
- Based on orthology data:
- Creation of a global metabolic network containing 676 reactions
- From template faecalibacteriumprausnitziia2-165_heinken2014 creation of a metabolic network containing: 315 reactions
- From template l_plantarum_wcfs1 creation of a metabolic network containing: 211 reactions
- From template bthetaiotaomicron_heinken2013 creation of a metabolic network containing: 296 reactions
- From template ecoli creation of a metabolic network containing: 448 reactions
- From template bifidobacteriumadolescentisl2-32 creation of a metabolic network containing: 214 reactions
- Creation of a global metabolic network containing 676 reactions
- Based on expertise:
- 118 reaction(s) added
- List of tools used:
- Tool: PathwayTools
- Tool: Pantograph
