Devlin Moyer

after taking a closer look, [MAR03964](https://metabolicatlas.org/explore/Human-GEM/gem-browser/reaction/MAR03964) seems to be an ATP maintenance reaction rather than a representation of a V-type ATPase (since the proton it produces is still in the...

the arachidonate reactions probably merit a separate issue, because there seem to be several similarly suspicious pairs in addition to the one you mentioned that have the peroxide in a...

MAR04910, MAR04411, and MAR04912 were addressed in #568/#600. MAR06057 was not mentioned, but MAR04411 was removed in #600, and MAR04411 was the only potential duplicate of MAR06057 listed here. MAR05295...

FYI I just edited my proposed changes a bit because I realized the empirical formulas I looked up were for _neutral_ FMN and FMNH2, but these metabolites represent their -2...

at the moment, I don't know of any reactions that those free fatty acids could participate in, so making new metabolites for their CoA esters and replacing them in these...

yea the only reactions any of these FFAs participate in (except for 3-oxo-10(R/S)-hydroxy-octadeca-(6E,8E,12Z)-trienoate, which is already accounted for in the proposed changes) are the ones in this table

Re: not wanting to edit the metabolite objects directly because they map to other identifiers: all of the metabolites that I proposed to edit are only associated with EHMN, Recon3D,...

I used a script to identify all reactions that had metabolites in [m] that were associated with one or more genes that encode exlusively peroxisomal beta-oxidation enzymes in #634, but...

ah yea I just did something like ```python perox_genes = ['ACOX1', 'ACOX2', 'ACOX3', 'ACAD11', 'EHHADH', 'HSD17B4', 'ACAA1', 'DECR2'] for r in model.reactions: if any(g in r.gene_name_reaction_rule for g in perox_genes)...

@feiranl I got the localizations from the links in the second table (i.e. Uniprot or various papers when Uniprot did not have a localization or only had a localization "by...