feat:Missing annotations for Rhea and ModelSEED database

SysBioChalmers / yeast-GEM

The consensus GEM for Saccharomyces cerevisiae

http://sysbiochalmers.github.io/yeast-GEM/

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feat:Missing annotations for Rhea and ModelSEED database #231

Open feiranl opened 4 years ago

feiranl commented 4 years ago

Description of the issue:

Rhea and ModelSEED IDs for both mets and rxns are missing from current model.

I hereby confirm that I have:

[x] Tested my code with all requirements for running the model
[x] Done this analysis in the master branch of the repository
[x] Checked that a similar issue does not exist already
[x] If needed, asked first in the Gitter chat room about the issue

BenjaSanchez commented 4 years ago

thanks for opening this! A good starting point here will be to move the already existing 61 SEED ids and 52 RHEA ids that are available in the model notes to the proper annotation fields, as highlighted in #226

hongzhonglu commented 4 years ago

@feiranl I can help to take care of it as previously i collect the rxn annotation from Rhea. I think it is easy to add the annotation information from Rhea and Modelseed in an easy way.

mihai-sysbio commented 2 years ago

Based on the experience with Human-GEM, I can recommend using MNXref. Alternatively, BridgeDB might be worthwhile to look into. edit: sorry about accidentally closing the issue