E.g., /pc2/graph?kind=neighborhood&source=A0A075B6K4&format=sif return empty result, but the corresponding n-hood BioPAX sub-model has TRR, TR, Rna, Protein participants, etc.
That's probably partly because the TR does not define template property (only product - the protein), and partly due to the RnaReference has only "mirbase mature sequence" id (MIMAT0000765 - not mapped to HGNC).
PS:
Shall we also add to the graph and get queries new optional parameters, e.g., xrefdb (or seqIdType, chemIdType, idType or smth.) - to be used by the BioPAX-to-SIF converter (Paxtools toSIF console command allows one specify e.g. -seqDb=hgnc,uniprot,mirbase,reactome - xref.db prefixes to consider/try, in given order/priority, for writing to SIF and extended SIF)...
E.g.,
/pc2/graph?kind=neighborhood&source=A0A075B6K4&format=sifreturn empty result, but the corresponding n-hood BioPAX sub-model has TRR, TR, Rna, Protein participants, etc.That's probably partly because the TR does not define
templateproperty (onlyproduct- the protein), and partly due to the RnaReference has only "mirbase mature sequence" id (MIMAT0000765 - not mapped to HGNC).PS: Shall we also add to the graph and get queries new optional parameters, e.g.,
xrefdb(orseqIdType, chemIdType, idTypeor smth.) - to be used by the BioPAX-to-SIF converter (Paxtools toSIF console command allows one specify e.g.-seqDb=hgnc,uniprot,mirbase,reactome- xref.db prefixes to consider/try, in given order/priority, for writing to SIF and extended SIF)...