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Re: DBpedia to OBO mapping: did someone already work on it?

From: Kei Cheung <kei.cheung@yale.edu>
Date: Thu, 26 Mar 2009 22:22:19 -0400
Message-ID: <49CC385B.3080101@yale.edu>
To: Jack Park <jackpark@gmail.com>
CC: public-semweb-lifesci <public-semweb-lifesci@w3.org>
Jack,

The following paper describes NIFSTD:

http://www.ncbi.nlm.nih.gov/pubmed/18975148

It is an integrated neuroscience ontology developed by the Neuroscience 
Information Framework (NIF). It includes NeuroNames (from BrainInfo) for 
anatomical regions plus curation/comments.

-Kei

Jack Park wrote:

>Looking at BrainInfo [1], which, as I recall, serves as a nomenclature
>source for UMLS, the two names, telencephalon, and cerebrum, are
>treated separately; neither mentions the other as a synonym (unless I
>missed something).
>
>Jack
>[1] http://braininfo.rprc.washington.edu/Default.aspx
>
>On Thu, Mar 26, 2009 at 11:56 AM, Kingsley Idehen
><kidehen@openlinksw.com> wrote:
>  
>
>>Kei Cheung wrote:
>>    
>>
>>>Matthias,
>>>
>>>In DBPedia, the following pages describe 2 brain regions (Telencephalon
>>>and Cerebrum):
>>>
>>>http://dbpedia.org/resource/Telencephalon
>>>http://dbpedia.org/page/Cerebrum
>>>      
>>>
>><http://dbpedia.org/resource/Telencephalon> dbpprop:redirect
>><http://dbpedia.org/resource/Cerebrum>
>>
>>DBpedia world view should be formally expressed as:
>><http://dbpedia.org/resource/Telencephalon> owl:sameAs
>><http://dbpedia.org/resource/Cerebrum>
>>
>>Based on: http://en.wikipedia.org/wiki/Telencephalon which reads:
>>The *cerebrum or telencephalon*, together with the diencephalon, constitute
>>the forebrain....
>>
>>If doesn't set off a war, I'll issue a SPARQL Update :-)
>>
>>
>>Kingsley
>>    
>>
>>>NIFSTD is listed as one of the neuroscience ontologies through BioPortal,
>>>its description of cerebrum is available at:
>>>
>>>http://bioportal.bioontology.org/visualize/39595/p15:birnlex_1042
>>>
>>>If you read the editorial note (written by Bill Bug), it says:
>>>
>>>"It isn't clear all would agree Cerebrum and Telencephalon are
>>>equivalent."
>>>
>>>Should we use "sameAs" or something else?
>>>
>>>Cheers,
>>>
>>>-Kei
>>>
>>>
>>>Matthias Samwald wrote:
>>>      
>>>
>>>>Question: Does a mapping between DBpedia and the OBO ontologies exist?
>>>>Has someone already invested some time in doing this, or at least reviewed
>>>>how to best approach it?
>>>>
>>>>Given the central position of DBpedia in the linked data cloud and its
>>>>rich content in the biomedical domain, creating such a mapping is an obvious
>>>>(and very useful) thing to do.
>>>>
>>>>
>>>>Cheers,
>>>>Matthias Samwald
>>>>
>>>>DERI Galway, Ireland
>>>>http://deri.ie/
>>>>
>>>>Konrad Lorenz Institute for Evolution & Cognition Research, Austria
>>>>http://kli.ac.at/
>>>>
>>>>        
>>>>
>>>
>>>
>>>      
>>>
>>--
>>
>>
>>Regards,
>>
>>Kingsley Idehen       Weblog: http://www.openlinksw.com/blog/~kidehen
>>President & CEO OpenLink Software     Web: http://www.openlinksw.com
>>
>>
>>
>>
>>
>>
>>    
>>
>
>
>  
>
Received on Friday, 27 March 2009 02:23:03 UTC

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