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[bioontology-support] [BioPortal] Feedback from Richard Scheuermann

John Graybeal jgraybeal at stanford.edu
Thu Oct 1 16:18:26 PDT 2020


Richard,

Thanks for your question.

We can talk offline about the exact form of the change that would suit you—for example, it is straightforward to search for it on the ontologies page, but if it's important do so so from the main page also, we could add a checkbox to offer the option of including views in the search. Possibly another option would appeal more to you.

Because at the moment we are excruciatingly limited in our available development resources, we don't have anyone who can do this change. If you can identify a funding source, I believe we could use it to acquire additional resources for the time needed to make the change. Please contact me directly if this interests you.

John

On Oct 1, 2020, at 3:12 PM, Scheuermann, Richard <RScheuermann at jcvi.org<mailto:RScheuermann at jcvi.org>> wrote:

How do we change that?

--------------------------------------------
Richard H. Scheuermann, Ph.D.
Director, La Jolla Campus
J. Craig Venter Institute
4120 Capricorn Ln.
La Jolla, CA 92037
www.jcvi.org<http://www.jcvi.org/>

rscheuermann at jcvi.org<mailto:rscheuermann at jcvi.org>
858-200-1876




From: Michael Dorf <mdorf at stanford.edu<mailto:mdorf at stanford.edu>>
Date: Thursday, October 1, 2020 at 3:05 PM
To: "support at bioontology.org<mailto:support at bioontology.org>" <support at bioontology.org<mailto:support at bioontology.org>>
Cc: "Richard H. Scheuermann" <RScheuermann at jcvi.org<mailto:RScheuermann at jcvi.org>>
Subject: Re: [bioontology-support] [BioPortal] Feedback from Richard Scheuermann

Hi Richard,

Thank you for contacting us. The PCL ontology appears to be configured as a “View” of Cell Line ontology (CL) rather than a standalone ontology. A view usually means a “subset” of the main ontology. By design, views do not appear in the main ontology selector, although the terms from views are searchable via the main BioPortal search.

<image001.png>

Thanks,

Michael





On Sep 30, 2020, at 2:19 PM, support at bioontology.org<mailto:support at bioontology.org> wrote:

Name: Richard Scheuermann
Email: rscheuermann at jcvi.org<mailto:rscheuermann at jcvi.org>
Location: https%3A%2F%2Fbioportal.bioontology.org<https://nam12.safelinks.protection.outlook.com/?url=http%3A%2F%2F2fbioportal.bioontology.org%2F&data=02%7C01%7Crscheuermann%40jcvi.org%7C2dd2c700e7344e1e5a8208d86655f619%7C24d967f13ed84448baa6560ec572acb3%7C0%7C0%7C637371867411518080&sdata=Ml3pFSkJu5iz47Hpb74Tc1oUpug3tcxn6yyAvd8GHo8%3D&reserved=0>%2F

Feedback:
The Provisional Cell Ontology (https://bioportal.bioontology.org/ontologies/PCL<https://nam12.safelinks.protection.outlook.com/?url=https%3A%2F%2Fbioportal.bioontology.org%2Fontologies%2FPCL&data=02%7C01%7Crscheuermann%40jcvi.org%7C2dd2c700e7344e1e5a8208d86655f619%7C24d967f13ed84448baa6560ec572acb3%7C0%7C0%7C637371867411518080&sdata=xde8T37g1JPzkCHKhvYPdFBAF5jX%2Bdkkgaq7vNjpYQ8%3D&reserved=0> ) does not appear to be discoverable from the Find an ontology search function on the BioPortal home page. Why is that?

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========================
John Graybeal
Technical Program Manager
Center for Expanded Data Annotation and Retrieval /+/ NCBO BioPortal
Stanford Center for Biomedical Informatics Research
650-736-1632  | ORCID  0000-0001-6875-5360



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