Difference between revisions of "Category:Metabolite"

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==  description ==
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{{#ask: [[Category:metabolite]]
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== Automatic reconstruction with [http://aureme.genouest.org AuReMe] ==
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| ?common-name
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Model summary: [[MEDIA:summary.txt|summary]]
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}}
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Download '''AuReMe''' Input/Output [LINK OR MEDIA data]
 
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The automatic reconstruction of ''Fibrobacter succinogenes'' results to a Genome scale [[MEDIA:model.xml|Model]] containing 1227 reactions, 1334 metabolites, 1224 genes and 827 pathways. This GeM was obtained based on the following sources:
 
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* Based on annotation data:
 
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** Creation of a metabolic network containing 827 reactions
 
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* Based on orthology data:
 
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** Creation of a global metabolic network containing 377 reactions
 
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* Based on expertise:
 
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** 226 reaction(s) added
 
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*List of tools used:
 
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** Tool: [http://bioinformatics.ai.sri.com/ptools/ PathwayTools]
 
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** Tool: [https://github.com/davidemms/OrthoFinder Orthofinder]
 
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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[at]inria.fr
 

Latest revision as of 11:09, 17 October 2022

 Common-name
1-4-D-xylooligosaccharides
1-4-MannanA β-(1,4)-d-mannan
1-4-alpha-D-GlucanA 1,4-α-d-glucan
1-4-alpha-D-galacturonosylA homogalacturonan
1-4-beta-XylanA (1→4)-β-d-xylan
1-5-L-ArabinooligosaccharidesAn α(1,5)-l-arabinan
1-AMINO-PROPAN-2-OL(r)-1-aminopropan-2-ol
1-AMINO-PROPAN-2-ONE-3-PHOSPHATE3-amino-1-hydroxyacetone 1-phosphate
1-Acyl-2-Arachidonoyl-Glycerol-PA 1-acyl-2-arachidonoyl-sn-glycerol 3-phosphate
1-Acyl-2-Arachidonoyl-PI-4PA 1-acyl-2-arachidonoyl-phosphatidylinositol 4-phosphate
1-Acyl-2-Arachindonoyl-PIsA 1-acyl-2-arachidonoyl-phosphatidylinositol
1-Alkyl-2-acyl-glycerol-3-phosphateA 2-acyl-1-alkyl-sn-glycerol 3-phosphate
1-Alkyl-sn-glycerol-3-phosphatesA 1-alkyl-sn-glycerol 3-phosphate
1-Arachidonoyl-2-Acyl-Glycerol-PA 1-arachidonoyl-2-acyl-sn-glycerol 3-phosphate
1-KETO-2-METHYLVALERATE(r)-2,3-dihydroxy-3-methylpentanoate
1-L-MYO-INOSITOL-1-P1d-myo-inositol 3-monophosphate
1-Lyso-phospholipidsA 1-lyso-phospholipid
1-PALMITOYLGLYCEROL-3-PHOSPHATE1-palmitoyl-sn-glycerol 3-phosphate
1-Palmitoyl-2-Acyl-Glycerol-PA 1-palmitoyl-2-acyl-sn-glycerol 3-phosphate
1-Stearoyl-L-PhosphatidateA 1-stearoyl 2-acyl-sn-glycerol 3-phosphate
10-FORMYL-THF10-formyl-tetrahydrofolate mono-l-glutamate
11Z-3-oxo-icos-11-enoyl-ACPs
16-HYDROXYPALMITATE16-hydroxypalmitate
16S-rRNA-2-O-methylcytidine1402A 2'-o-methylcytidine1402 in 16s rrna
16S-rRNA-N2-methylguanine966An n2-methylguanine966 in 16s rrna
16S-rRNA-N3-methyluracil1498An n3-methyluracil1498 in 16s rrna
16S-rRNA-N4-methylcytidine1402An n4-methylcytidine1402 in 16s rrna
16S-rRNA-N6-dimethyladenine1518-1519N6-dimethyladenine1518/n6-dimethyladenine1519in 16s rrna
16S-rRNA-N7-methylguanine527An n7-methylguanine527 in 16s rrna
16S-rRNA-adenine1518-adenine1519Adenine1518/adenine1519 in 16s rrna
16S-rRNA-cytidine1402A cytidine1402 in 16s rrna
16S-rRNA-guanine-527A guanine527 in 16s rrna
16S-rRNA-guanine-966A guanine966 in 16s rrna
16S-rRNA-uracil1498A uracil1498 in 16s rrna
18-HYDROXYOLEATE18-hydroxyoleate
2-3-4-Saturated-L-PhosphatidatesA 2,3,4-saturated 1,2-diacyl-sn-glycerol 3-phosphate
2-5-TRIPHOSPHORIBOSYL-3-DEPHOSPHO-2'-(5-triphospho-α-d-ribosyl)-3'-dephospho-coa
2-ACETO-2-HYDROXY-BUTYRATE(s)-2-aceto-2-hydroxybutanoate
2-ACETO-LACTATE(s)-2-acetolactate
2-ACYL-GPEA 2-acyl-1-lyso-phosphatidylethanolamine
2-AMINOACRYLATE2-aminoprop-2-enoate
2-C-METHYL-D-ERYTHRITOL-4-PHOSPHATE2-c-methyl-d-erythritol 4-phosphate
2-D-THREO-HYDROXY-3-CARBOXY-ISOCAPROATE(2r,3s)-3-isopropylmalate
2-DEHYDRO-3-DEOXY-D-GALACTONATE2-dehydro-3-deoxy-d-galactonate
2-DEHYDRO-3-DEOXY-D-GLUCONATE2-dehydro-3-deoxy-d-gluconate
2-DEHYDROPANTOATE2-dehydropantoate
2-HYDROXY-2-METHYLPROPANENITRILE2-hydroxy-2-methylpropanenitrile
2-Hexadecenoyl-ACPs
2-KETO-3-DEOXY-6-P-GLUCONATE2-dehydro-3-deoxy-d-gluconate 6-phosphate
2-KETO-3-METHYL-VALERATE(s)-3-methyl-2-oxopentanoate
... further results

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