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[bioontology-support] VO visualization in BioPortal

Yongqun He yongqunh at med.umich.edu
Thu Jun 25 15:32:25 PDT 2009


Hi Trish,
Thanks for the message. Have you got any results? 
Best,
--Oliver

>>> Trish Whetzel <plwhetzel at gmail.com> 6/24/2009 12:31 PM >>>
Sure, I've downloaded 1.0.55 and it opened fine in Protege 3.4 and have
loaded it to the stage database as a test. I'll check back later this
afternoon.

Trish


On Wed, Jun 24, 2009 at 3:55 AM, Yongqun He <yongqunh at med.umich.edu>
wrote:


Hi Trish,
I have updated VO again. See:
http://bioportal.bioontology.org/ontologies/40188 
We usually use Protege 4 for VO development. This updated VO is
confirmed to be saved as a RDF/XML file. I can open it using Protégé 3.4
although some Java bugs were displayed. 
Can you download this VO version and test it again?
Thanks!
--Oliver 

>>> Trish Whetzel <plwhetzel at gmail.com> 6/23/2009 12:52 PM >>>

Hi Oliver, 

Apologies for the delay - I was out of town. Are you able to open the
file in Protege 3.4? Last I tried to open the file in p4 to save as
RDF/XML (to open in Protege 3.4) there were errors.

Trish 


On Wed, Jun 10, 2009 at 5:03 AM, Yongqun He <yongqunh at med.umich.edu>
wrote:


Hi Trish,
I uploaded Vaccine Ontology (VO) in BioPortal yesterday:
http://bioportal.bioontology.org/ontologies/40116 
However, the current VO cannot now be visualized in BioPortal. 
Could you help to find out the potential reason(s)? One change we made
is in the "Synonym Slot (Owl Only) (e.g. SKOS:altLabel)", we changed
pervious 'synonym' to 'oboInOwl:Synonym'. We made this change in VO
because it is used in OBO. 
Thanks!
Oliver
Yongqun "Oliver" He, DVM, PhD
Assistant Professor
Unit for Laboratory Animal Medicine
Department of Microbiology and Immunology
and Center for Computational Medicine and Biology 
University of Michigan Medical School
Office: Room 105, Animal Research Facility (ARF)
Mailing: 018 ARF, 1150 W. Medical Center Dr.
Ann Arbor, MI 48109
Email: yongqunh at med.umich.edu 
Tel: 734-615-8231 (O); 734-615-2455 (L)
Fax: 734-936-3235
http://www.ulam.umich.edu/academic/he.htm 
http://www.med.umich.edu/microbio/bio/he.htm 
http://www.hegroup.org/ 

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Electronic Mail is not secure, may not be read every day, and should
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