Reaction Identifiers

[Flash1593]

This might be a silly question but is there a way to identify or convert the reaction & metabolite IDs in the Human-GEM so the output in MATLAB comes as actual reaction & metabolite names rather than just Human-GEM identifier?

[JonathanRob]

@Flash1593 not a silly question at all! The metNames and rxnNames fields in the model contain names of metabolites and reactions, respectively, that correspond to the IDs. However, the rxnNames are unfortunately missing for many reactions, so it is not a complete/perfect solution.

There are also annotation files in the model/ directory (metabolites.tsv and reactions.tsv) that provide additional identifiers for the metabolites and reactions. You can load them into Matlab using the importTsvFile function, or add the fields directly to the model using the annotateGEM function.