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[bioontology-support] Search by UMLS CUI

Ray Fergerson ray.fergerson at stanford.edu
Wed Oct 9 15:13:55 PDT 2013


You may have already been notified but, in case not, this is now working.

Ray

-----Original Message-----
From: bioontology-support-bounces at lists.stanford.edu
[mailto:bioontology-support-bounces at lists.stanford.edu] On Behalf Of Paul
R Alexander
Sent: Tuesday, October 01, 2013 10:56 AM
To: François Schiettecatte
Cc: support at bioontology.org
Subject: Re: [bioontology-support] Search by UMLS CUI

François,

This is a bug that we are currently working to resolve.

Best,
Paul


On Oct 1, 2013, at 10:49 AM, François Schiettecatte
<fschiettecatte at gmail.com> wrote:

> Hi
>
> I am the software developer working on OMIM.
>
> Last year these searches worked, but they don't work anymore, have they
changed?
>
>
http://bioportal.bioontology.org/search?q=C0221581&searchproperties=true
>
> Cheers
>
> François
>
>
>
> On Aug 15, 2012, at 1:55 PM, Paul R Alexander <palexander at stanford.edu>
wrote:
>
>> Yes, we can do that.
>>
>> To just search the properties, use this URL:
>>
http://bioportal.bioontology.org/search?q=C0221581&searchproperties=true
>>
>> If you need exact matches, you can add:
>> exactmatch=true
>>
>> If you want to show the advanced options in the UI (which will show the
checkboxes), then add this:
>> opt=advanced
>>
>> You can also limit the search to particular ontologies by adding:
>> ontologyids=1032,1104,1007
>>
>> Let me know if you have questions.
>>
>> Paul
>>
>>
>>
>> On 8/15/12 9:56 AM, François Schiettecatte wrote:
>>> Paul
>>>
>>> I spoke too soon, the form is driven by a POST, what I am looking for
is to link out to your website and have it run the search on the ID for
me, something along the lines of :
>>>
>>>
http://bioportal.bioontology.org/search?search=C0221581&search[include_pro
ps]=1
>>>
>>> For example Peter Robinson of HPO provides this format:
>>>
>>>
http://www.human-phenotype-ontology.org/hpoweb/showterm?id=HP:0001511
>>>
>>> It this possible?
>>>
>>>
>>> Cheers
>>>
>>> François
>>>
>>>
>>> On Aug 14, 2012, at 8:58 PM, Paul R Alexander
<palexander at stanford.edu> wrote:
>>>
>>>> François,
>>>>
>>>> The process for searching via a property value like CUI is different
depending on whether or not you are using the REST service or the Web UI.
>>>>
>>>> If you are using the UI, then click "advanced options" and select
"Property values" to include them in your search. Searching on a CUI id
(EX: C0221581) should return matching terms. You can also restrict results
to particular ontologies.
>>>>
>>>> You can achieve the same results on the REST service by using the
"includeproperties" query parameter, documented here:
>>>>
http://www.bioontology.org/wiki/index.php/BioPortal_REST_services#Search_B
ioPortal
>>>>
>>>> Let me know if you have other questions.
>>>>
>>>> Paul
>>>>
>>>>
>>>> On 8/14/12 6:30 AM, François Schiettecatte wrote:
>>>>> Hi
>>>>>
>>>>> I was wondering if it was possible to search by UMLS CUI?
>>>>>
>>>>> I am working on both OMIM and the Baylor-Hopkins Center for
Mendelian Genomics and am trying to find a decent link out for UMLS CUIs
and was hoping that BioOntology would be able to provide me that.
>>>>>
>>>>> Thanks
>>>>>
>>>>> François
>>>>>
>>>>>
>>
>
> _______________________________________________
> bioontology-support mailing list
> bioontology-support at lists.stanford.edu
> https://mailman.stanford.edu/mailman/listinfo/bioontology-support

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