Search Mailing List Archives


Limit search to: Subject & Body Subject Author
Sort by: Reverse Sort
Limit to: All This Week Last Week This Month Last Month
Select Date Range     through    

[bioontology-support] FMA ontology

Madani,Sina AHMadani at mdanderson.org
Fri Mar 16 07:59:56 PDT 2012


Thank you Natasha and Trish,

Loading the FMA owl version (3.2.1) generates "Multiple children of property elements" error for almost all the triples (I guess) because the size of the catalina log file increases to 2 Gb by the end of failed processing and shuts down the Tomcat server...


Sina

[cid:image001.png at 01CD035B.090CE640]

From: Trish Whetzel [mailto:whetzel at stanford.edu]
Sent: Thursday, March 15, 2012 11:24 AM
To: Madani,Sina
Cc: support at bioontology.org Support
Subject: Re: [bioontology-support] FMA ontology

Another way to check for what properties an ontology is using in BioPortal for the preferred name and synonym is the Web service call "Get latest version of an ontology id" [1] in the XML attributes <synonymSlot> and <preferredNameSlot>. E.g. for FMA: http://rest.bioontology.org/bioportal/virtual/ontology/1053?apikey=YourAPIKey

Trish

[1] http://www.bioontology.org/wiki/index.php/NCBO_REST_services#Get_latest_version_of_an_ontology_id



On Mar 15, 2012, at 9:09 AM, Natasha Noy wrote:


Sina,

It's better to load the OWL version, available from the FMA web site [1]. THe property for preferred name is rdf:Label and the synonym property is Synonym.

Natasha

[1] http://code.google.com/p/fma-in-owl/downloads/detail?name=fma.owl

On Mar 14, 2012, at 7:44 AM, Madani,Sina wrote:


Should I process FMA ontology, in our local appliance instance, as Protege format or OWL? The download file from NCBO (V.3.1) contains a pprj file while on the info page it is mentioned "Format: OWL". If the later is true should I use fma:synonym and fma: definition for the related property slots?

Thanks!

Sina
_______________________________________________
bioontology-support mailing list
bioontology-support at lists.stanford.edu<mailto:bioontology-support at lists.stanford.edu>
https://mailman.stanford.edu/mailman/listinfo/bioontology-support

_______________________________________________
bioontology-support mailing list
bioontology-support at lists.stanford.edu<mailto:bioontology-support at lists.stanford.edu>
https://mailman.stanford.edu/mailman/listinfo/bioontology-support

Trish Whetzel, PhD
Outreach Coordinator
The National Center for Biomedical Ontology
Ph: 650-721-2378
http://www.bioontology.org

"Like" NCBO on Facebook: http://on.fb.me/bioontology

Follow NCBO on Twitter: http://twitter.com/#!/bioontology

Join in Discussions on LinkedIn: http://linkd.in/ncbo-group

-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://mailman.stanford.edu/pipermail/bioontology-support/attachments/20120316/6c49721e/attachment-0001.html>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: image001.png
Type: image/png
Size: 18745 bytes
Desc: image001.png
URL: <http://mailman.stanford.edu/pipermail/bioontology-support/attachments/20120316/6c49721e/attachment-0001.png>


More information about the bioontology-support mailing list