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incf-nidash / nidm-specs

Neuroimaging Data Model (NIDM): describing neuroimaging data and provenance
nidm.nidash.org
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Publish OWL ontologies in BioPortal #507

Open ckindermann opened 5 months ago

ckindermann commented 5 months ago

Hi, is there any chance of making all NIDM OWL ontologies available on BioPortal? At the moment, I can only find NIDM-RESULTS on BioPortal. I am also curious whether there are any updates regarding the discussion in #448.

I am asking because the NIDM ontologies are a valuable resource in the context of annotating BIDS-compliant datasets published on OpenNeuro. Making the NIDM ontologies available on BioPortal makes their content easily accessible to a range of tools, e.g. CEDAR.

Please let me know if I can help with any of the above and thank you for your work on NIDM.

khelm commented 5 months ago

Thanks for your inquiry. Yes, posting NIDM-E on Bioportal is one of our goals and we're working towards that. Currently, NIDM-E uses Prov-O as it's base ontology. I'm currently working on rebasing it on BFO/OBI which will give us access to a larger set of terms that are being actively curated. This rebased version will be available to the public soon, I'm doing some last cleaning at the moment. Are you part of the Bioportal team?

ckindermann commented 5 months ago

Thanks for your quick response! This all sounds great. I especially like the idea of reusing OBI for this kind of work. Yes, I am in Mark Musen's group and I share an office with the BioPortal team - but I am not actively working on BioPortal's infrastructure. I'm interested in NIDM because I'm considering reusing terms from your ontologies to build CEDAR templates for the OpenNeuro project. Having access to NIDM ontologies in BioPortal makes some of this work easier.

khelm commented 5 months ago

That sounds great and I'd be happy to help in anyway I can. I'll keep you posted on my progress. Currently I have everything integrated into a BFO/OBI graph, and am now working to eliminate duplications and redundancies. So should be "soon"!