Jonathan Robinson

Thank you for all of your help on this, @cherkaos, @Rasools, and @CadavidJoseL. The tightly defined flux bounds on the tasks is a bit more constrained that the typical tasks...

A recent publication that may be useful for this effort: https://www.embopress.org/doi/full/10.15252/msb.202010016

Hi @Yu-sysbio, in general we retrieve our gene IDs and their associated symbols/other IDs from Ensembl. Is there something specific (gene/genes) that you're hoping to update?

Ok interesting. Unless any of the newly added genes encode a protein that catalyzes a metabolic reaction, the update would not make a difference. Though if one of the new...

@johan-gson @haowang-bioinfo we can close for now and always re-open later if necessary.

I guess it's technically valid (as far as SBML is concerned) to have multiple subsystems per reaction, but since we have so far been using 1 to 1 relationships, I...

Thanks @ANiknejad for identifying this. It seems that both metabolites (`MAM01026` and `MAM00348`) are supposed to correspond to the same 4-oxo-13-cis form, though some of the reactions in which they...

It seems like the correct genes should be the [ELOVL genes](https://biocyc.org/gene?orgid=META&id=HS10142), but the process takes place in (the membrane of) the endoplasmic reticulum. The [MAR02517](https://metabolicatlas.org/explore/Human-GEM/gem-browser/reaction/MAR02517) reaction (the subject of this...

Earlier it was suggested that we should have some scripted way to do this so that it could be run repeatedly. I've thought about it and don't think that this...

Good spotting, I agree that β-oxidation of FFAs should be replaced with their CoA-activated counterparts, since that is what the literature supports. However, I'm not sure it would be ideal...