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[bioontology-support] [BioPortal] Feedback from Olivier Rossel

Olivier Rossel olivier.rossel at
Wed Jul 31 15:09:42 PDT 2013

Hi Ray.

First let me tell you that I am a huge fan of your work on Protege. And i am happy to have the opportunity to talk with you.

Next, i will tell you my opinion about the concept search in the portal.
I think it is a great tool for ontology engineers. Valuable to many communities. And with virtually no alternative (concept search is a wreck in the Semantic Web). 

I presume most of your funding comes from the field of biomedical, so I understand you focus on services for that community.
But I really would love to have such a service available for the whole SW community.

Are there any hope the concept search can be made available as a deployable service, or as hackable open source code, so a generic service can be deployed (for example) on

Envoyé de mon iPad

Le 31 juil. 2013 à 22:08, "Ray Fergerson" <ray.fergerson at> a écrit :

> Olivier,
> Let me address the easy questions first. You must first register and
> create a bioportal account. You can then submit an ontology from the top
> of the "Browse" page. It will show up within a day, automatically. It will
> be indexed for search when it shows up in the UI. It will be indexed for
> use by the annotator in a few weeks. This is all fairly automatic.
> As for content, we are a bit flexible. We accept ontologies that are
> either in the biomedical domain and which we feel might be of interest to
> someone in biomedicine. Thus we allow generic "top level" ontologies and
> we have an ontology of places (GAZ). Neither of these has biomedical
> content be we could imagine a biomedical researcher might find them
> valuable. On the other end we have recently removed a generic ontology of
> books for being off topic. The slope is slippery though and it is
> difficult to be crisp. Curation of this sort happens after submission
> though. 
> Ray
> -----Original Message-----
> From: bioontology-support-bounces at
> [mailto:bioontology-support-bounces at] On Behalf Of
> support at
> Sent: Wednesday, July 31, 2013 7:55 AM
> To: support at; olivier.rossel at
> Subject: [bioontology-support] [BioPortal] Feedback from Olivier Rossel
> Name: Olivier Rossel
> Email: olivier.rossel at
> Location:
> Comment:
> Hi guys, 
> First, I think you have the best infrastructure to search for concepts in
> ontologies.
> My question is:
> Do you accept to reference and index ontologies that are not biomedic
> related.
> (cf for example the NASA "sweet.owl" that is already in bioportal)
> And then:
> what is the process to add an ontology to the set you are already indexing
> ?
> Can (motivated) people do that job by themselves? 
> Or is there an approval to ask to your team?
> _______________________________________________
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> bioontology-support at

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