draeger-lab/ModelPolisher

Add annotations for KEGG pathways and genes

Opened this issue · 1 comments

NantiaL commented

It would be very useful to have annotations for KEGG subsystems and genes assigned by the ModelPolisher. This would save a lot of time and work during model curation.

To obtain genes' annotations one of the following methods could be used:

  • the GenBank file combined with old/new locus tags
  • the NCBI API
  • the KEGG API and the conv operation
matthiaskoenig commented

Just to comment on this. KEGG is basically dead for many researchers since moving behind a non-open license. This makes it basically impossible to work with KEGG data and annotations. Many researchers dropped KEGG in recent years (as did I). I would not recommend to put any effort in supporting KEGG, but instead use open alternatives such as reactome.

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