biopragmatics / bioregistry

📮 An integrative registry of biological databases, ontologies, and nomenclatures.

https://bioregistry.io

MIT License

110 stars 48 forks source link

Metacyc pathway does not have a prefix in bioregistry. #1011

Closed hrshdhgd closed 7 months ago

hrshdhgd commented 7 months ago

Continued from #1008

The prefix metacyc.pathway does not seem to exist in bioregistry. Could we add this?
An example for a pathway would be: 12DICHLORETHDEG-PWY. Here the pathway ID (1,2-dichloroethane degradation) would not follow our standard CURIE pattern. Any suggestions?

All 3 (reaction, compound and pathways) have BioCyC IDs but then they're not represented as ABCD:1234 format we all prefer.

cmungall commented 7 months ago

@hrshdhgd this one is straightforward. The CURIE would be metacyc.pathway:12DICHLORETHDEG-PWY. This is perfectly fine. 1,2-dichloroethane degradation is the label. This is a straightforward new prefix request.

There are likely more here for metacyc for other types: organism, media

cthoyt commented 7 months ago

Great, then feel free to use the new prefix issue template to get started

hrshdhgd commented 7 months ago

biopragmatics / bioregistry

Metacyc pathway does not have a prefix in bioregistry. #1011

1012