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[bioontology-support] Retrieving ontology IRI from Bioportal API

Antoine Brémaud abremaud at esciencefactory.com
Tue May 31 08:09:16 PDT 2016


Dear Sir/Madam,


We are trying to harvest a subset of information about ontologies available
via Bioportal.

We managed to retrieve the ontology name, version and version date, but
would also be interested in obtaining the ontology IRI (purl address to the
owl file).

We were unable to identify a method for retrieving the IRI of an ontology
from the Bioportal API (http://data.bioontology.org), despite some amount
of time dedicated to reading the documentation and exploring the API in
practice.

What method would be recommended for retrieving the *IRI of every ontology
listed on the Bioportal API* from the Bioportal API either directly or
equivalently via the Sparql endpoint perhaps?

About the latter method, early attempts also indicated that differences may
exist between information available from the API compared to that available
from the endpoint. In particular: latest ontology versions, ontology
available from API but not the endpoint (e.g. ICO), ontology name (e.g. OBI
name not absolutely identical between the two).
Are such mismatches expected, what guidelines may exist about information
correspondence between that available from the API and that available via
the Sparql endpoint?

Thank you in advance for your help.


Best regards,
Antoine Bremaud

e-Science Data Factory
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