20140517

RDF model

Ensembl

• Draft version of core RDF model is designed/implemented.
• Writing export script for trial tomorrow.

Identifiers.org

Variety of URIs that Identifiers.org provides:

• http://identifiers.org/db/id -- canonical URI
• http://info.identifiers.org/db[/id] -- provides info in (miriam) registry
• http://idtype.identifiers.org/db -- expresses "ID" is an identifier of the "db"

Modifications will be made to Identifiers.org:

• Will provide informative RDF for http://identifiers.org/db and http://identifiers.org/db/id
• Will remove trailing / from http://idtype.identifiers.org/db/

Identifiers.org URIs in RDF data

• We will use "http://identifiers.org/db/id sio:is-part-of|dct:isPartOf|void:inDataSet http://identifiers.org/db" instead of rdf:type.
• dct:isPartOf -- widely used
• void:inDataSet -- range must be :RDFDataset
• Checked xrefs in INSDC records /xref="DB:ID" for missing, discontinued, non-existing, unknown databases (rs_id.json, getentry_id.json)
• compare with 2100 namespaces in Bio2RDF

GFVO