Difference between revisions of "CPD-10792"

From metabolic_network
Jump to navigation Jump to search
(Created page with "Category:metabolite == Metabolite CPD-12116 == * common-name: ** demethylmenaquinol-6 * smiles: ** cc(=cccc(c)=cccc(c)=cccc(c)=cccc(c)=cccc(c)=ccc1(c=c(o)c2(c=cc=cc(c(o)=1...")
(Created page with "== description == == Automatic reconstruction with [http://aureme.genouest.org AuReMe] == Model summary: summary Download '''AuReMe''' Input/Output [LI...")
Line 1: Line 1:
−
[[Category:metabolite]]
+
==  description ==
−
== Metabolite CPD-12116 ==
+
== Automatic reconstruction with [http://aureme.genouest.org AuReMe] ==
−
* common-name:
+
Model summary: [[MEDIA:summary.txt|summary]]
−
** demethylmenaquinol-6
+
 
−
* smiles:
+
Download '''AuReMe''' Input/Output [LINK OR MEDIA data]
−
** cc(=cccc(c)=cccc(c)=cccc(c)=cccc(c)=cccc(c)=ccc1(c=c(o)c2(c=cc=cc(c(o)=1)=2)))c
+
 
−
* inchi-key:
+
The automatic reconstruction of ''MODEL_NAME'' results to a Genome scale [[MEDIA:model.xml|Model]] containing 3356 reactions, 3250 metabolites, 5018 genes and 1391 pathways. This GeM was obtained based on the following sources:
−
** ufaxpzazhzpelj-rotsudqpsa-n
+
* Based on orthology data:
−
* molecular-weight:
+
** Creation of a global metabolic network containing 1879 reactions
−
** 568.881
+
*** From template ''ectocarpus_siliculosus'' creation of a metabolic network containing: 1492 reactions
−
== Reaction(s) known to consume the compound ==
+
*** From template ''arabidopsis_thaliana'' creation of a metabolic network containing: 419 reactions
−
* [[RXN-9220]]
+
*** From template ''nannochloropsis_salina'' creation of a metabolic network containing: 589 reactions
−
== Reaction(s) known to produce the compound ==
+
* Based on annotation data:
−
== Reaction(s) of unknown directionality ==
+
** Creation of a metabolic network containing 2552 reactions
−
{{#set: common-name=demethylmenaquinol-6}}
+
* Based on expertise:
−
{{#set: inchi-key=inchikey=ufaxpzazhzpelj-rotsudqpsa-n}}
+
** 101 reaction(s) added
−
{{#set: molecular-weight=568.881}}
+
* Based on gap-filling:
 +
*** 90 reaction(s) added
 +
 
 +
*List of tools used:
 +
** Tool: [http://pathtastic.gforge.inria.fr Pantograph]
 +
** Tool: [http://bioinformatics.ai.sri.com/ptools/ PathwayTools]
 +
 
 +
** Tool: [https://pypi.python.org/pypi/meneco Meneco]
 +
[[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: CONTACT_MAIL

Revision as of 15:00, 5 January 2021

description

Automatic reconstruction with AuReMe

Model summary: summary

Download AuReMe Input/Output [LINK OR MEDIA data]

The automatic reconstruction of MODEL_NAME results to a Genome scale Model containing 3356 reactions, 3250 metabolites, 5018 genes and 1391 pathways. This GeM was obtained based on the following sources:

  • Based on orthology data:
    • Creation of a global metabolic network containing 1879 reactions
      • From template ectocarpus_siliculosus creation of a metabolic network containing: 1492 reactions
      • From template arabidopsis_thaliana creation of a metabolic network containing: 419 reactions
      • From template nannochloropsis_salina creation of a metabolic network containing: 589 reactions
  • Based on annotation data:
    • Creation of a metabolic network containing 2552 reactions
  • Based on expertise:
    • 101 reaction(s) added
  • Based on gap-filling:
      • 90 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: CONTACT_MAIL
Retrieved from "https://gem-aureme.genouest.org/sjapgem/index.php?title=CPD-10792&oldid=61696"