Integrate ACSN (human) pathway data?

[IgorRodchenkov]

NaviCell (not in MIRIAM registry); PMID:24099179

(They integrate at least 5 original pathway/interaction data sources. I could not find human BioPAX pathway data out there...)

[IgorRodchenkov]

We actually want ACSN; PMID:26192618

[IgorRodchenkov]

Atlas of Cancer Signaling Networks

• standard name: ACSN (NaiviCell is the umbrella project; MIRIAM registry does not have neither Navicell nor ACSN);
• home page: https://acsn.curie.fr (navicell.curie.fr);
• download URL: https://acsn.curie.fr/downloads.html
• PMID:26192618 (?);
• availability: free (have to cite)

Were all the BioPAX files generated from the original ACSN CellDesigned maps (xml) with BiNoM Cytoscape (v2.x?) plugin, without any additional data?

BioPAX problems (at a glance):

1. some EntityReferences have no xrefs;
2. ProteinReference, DnaReference, etc. entity references have gene names in relationship Xref.id, though Xref.db="HGNC" instead of "HGNC Symbol" (these are not the same type of ID);
3. there are Catalysis interactions having 'INHIBITION' controlType (only 'ACTIVATION' or null is allowed); so, Control class should be used instead Catalysis in all such cases.
4. There are reactions that convert one protein to another type, e.g., EYA -> EYA3...

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