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[bioontology-support] [BioPortal] Feedback from Tatsuya Kushida

Jennifer Leigh Vendetti vendetti at
Fri Dec 7 14:32:40 PST 2018

Hello Tatsuya,

I should have added previously that in order to use the API, you’ll need to get an API key. Instructions for doing so are on our wiki:

Kind regards,

On Dec 7, 2018, at 2:29 PM, Tatsuya Kushida <kushida at<mailto:kushida at>> wrote:

Hello Jennifer, and John,

Thank you for your quick response. I'm afraid that I can't use the
SPARQL endpoint, but I will attempt to use the API.

Best regards,
2018年12月8日(土) 3:22 Jennifer Leigh Vendetti <vendetti at<mailto:vendetti at>>:

Hello Tatsuya,

You might be interested to look at BioPortal's REST API. The API is actively supported and allows you to access your current ontology data, e.g.:

The API is documented here:

Kind regards,

On Dec 7, 2018, at 7:47 AM, John Graybeal <jgraybeal at> wrote:


We're sorry, but we have not updated the Beta SPARQL end point for quite some time. We hope to bring up a new endpoint in the future, but the SPARQL endpoint is not currently a supported product for BioPortal.


On Dec 7, 2018, at 1:10 AM, support at wrote:

Name: Tatsuya Kushida

Email: kushida at



I'm a researcher from National Bioscience Database Center of Japan Science and Technology Agency. I registered my ontology "IOBC" ( in BioPortal. However when I performed the following SPARQL query using BioPortal SPARQL endpoint (, I couldn't find "IOBC". How can I find "IOBC"?

### my performed SPARQL query ###
SELECT distinct *
?ont a omv:Ontology .
?ont omv:acronym "IOBC"^^xsd:string .

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bioontology-support at

John Graybeal
Technical Program Manager
Center for Expanded Data Annotation and Retrieval /+/ NCBO BioPortal
Stanford Center for Biomedical Informatics Research

bioontology-support mailing list
bioontology-support at

櫛田達矢(Tatsuya Kushida)
国立研究開発法人 科学技術振興機構(JST)
102-0081 東京都千代田区四番町5-3
TEL: 03-5214-8491 FAX: 03-5214-8470
mob: 090-6199-2657
kushida at<mailto:kushida at>

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