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feat: Uniprot annotations for all genes

Open edkerk opened this issue 3 years ago • 4 comments
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Description of the issue:

Add Uniprot annotations in model.geneMiriams (see identifiers.org) for all genes. Use the S288c reference proteome as source, providing one Uniprot ID per gene.

I hereby confirm that I have:

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

edkerk avatar Jun 05 '22 17:06 edkerk

Hi Ed, what is detailed annotation, only the Uniprot ID per gene?

hongzhonglu avatar Jun 06 '22 07:06 hongzhonglu

Indeed, this has recently been done nicely for new genes that @cheng-yu-zhang has been introducing (example, uniprot column), having this for all genes would be useful, particular with ec-models in mind.

edkerk avatar Jun 06 '22 14:06 edkerk

I see. It looks great.

hongzhonglu avatar Jun 09 '22 09:06 hongzhonglu

Looking at the information that can be parsed from Uniprot, this can probably quite easily be implemented.

edkerk avatar Jun 09 '22 10:06 edkerk

I will think about it.

cheng-yu-zhang avatar Jul 24 '23 12:07 cheng-yu-zhang