View source for Manual-4 newreactions

== EFAEV583GEM description ==
== Automatic reconstruction with [http://aureme.genouest.org AuReMe] ==
Model summary: [[MEDIA:efaecalisV583_final.txt|summary]]

Download '''AuReMe''' Input/Output [https://mybox.inria.fr/f/6e73f7ad41/?raw=1 data]

The automatic reconstruction of ''Enterococcus_faecalis_str_v583'' results to a Genome scale [[MEDIA:efaecalisV583_final_lvl3.xml|Model]] containing 1117 reactions, 911 metabolites, 610 genes and 106 pathways. This GeM was obtained based on the following sources:
* Based on orthology data:
** Tool: [http://pathtastic.gforge.inria.fr Pantograph]
*** From template ''E_COLI_SSTR_K12_SUBSTR_MG1655'' creation of a metabolic network containing: 528 reactions
*** From template ''L_PLANTARUM_WCFS1'' creation of a metabolic network containing: 385 reactions
*** From template ''B_SUBTILIS_SUBSP_SUBTILIS_STR168'' creation of a metabolic network containing: 463 reactions
* Based on expertise:
*** 221 reaction(s) added
* Based on gap-filling:
** Tool: [https://pypi.python.org/pypi/meneco meneco]
*** 50 reaction(s) added

[[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@inria.fr