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[bioontology-support] Excluding some ontologies.

Vincent Emonet vincent.emonet at
Wed Jun 21 01:37:09 PDT 2017

Hi Sara,

There are multiple options to do this:

  * You can use the search ontology filter ( Advanced options >
    Ontologies ). The "Select from list" interface helps you filter the
    ontologies you want to use (by selecting a whole group or category)

  * If you are always using the same ontologies, you can filter them in
    the portal by setting a "Custom Ontology Set" on your account: the
    portal will only use the ontologies you selected and hide all others

  * You also can create a slice, a subdomain of the BioPortal services
    where only a specific set of ontologies are used (i.e.: )

  * On our side we recently made some changes to better handle language
    in BioPortal. We only index properties from selected languages (so
    if the portal is set as "french", then it will not index properties
    that have the english language tag)

Have a nice day,


On 20/06/2017 19:12, John Graybeal wrote:
> Sara,
> Thank you for asking. I'm sorry, the only way I know to do this right 
> now is to explicitly name the ontologies you do want to search.
> Our colleagues in France have considered this question for their 
> BioPortal-based servers, which track the language of each ontology. 
> But I don't know if they have implemented the necessary software to 
> search by ontology language. If they have, it might provide an upgrade 
> path for BioPortal, though not one in our immediate plans given 
> available resources.
> I'll ask them to respond to this thread if they have anything to add.
> John
>> On Jun 20, 2017, at 10:03 AM, Sara ArabYarmohammadi 
>> <s.yarmohammadi at <mailto:s.yarmohammadi at>> wrote:
>> Hi,
>> I know that I can consider some specific ontologies while performing 
>> term search but is there a way to *exclude* some ontologies while 
>> searching? Some ontologies are not in English and I don’t want to 
>> have their result in my output. Would you please help me with 
>> possible options?
>> Thank you,
>> Sara
>> _______________________________________________
>> bioontology-support mailing list
>> bioontology-support at 
>> <mailto: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

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