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BiGCAT-UM / KinRDF

Conversion of kinetic data to an RDF model, compatible with WikiPathways PathWayModels
MIT License
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Update UniProt PREFIX #4

Closed DeniseSl22 closed 1 year ago

DeniseSl22 commented 1 year ago

Comment from @egonw

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DeniseSl22 commented 1 year ago

Question @egonw : we don't define the UniProt prefix in the WP RDF; we use the BridgeDb construct:

wp:bdbUniprot       <https://identifiers.org/uniprot/>

UniProt uses the following in their RDF (which might help with a federated query:

PREFIX up: <http://purl.uniprot.org/core/>
PREFIX uniprotkb: <http://purl.uniprot.org/uniprot/>

So, I'm a bit in doubt now which might be better. I would think we want to stay in line with the current model in WP, so I'll update the http to httpS, and will change the PREFIX name. Other suggestions are welcome :)

egonw commented 1 year ago

Since you can choose, I'd go for uniprotkb:

DeniseSl22 commented 1 year ago 
uniprotkb

Yes, I just checked some example queries, and saw this:

uniprotkb:P05067 a up:Protein ;

So the "uniprotkb" PREFIX is used to link to the ID.