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Re: [BioRDF] Mapping MeSH to DBpedia

From: Kingsley Idehen <kidehen@openlinksw.com>
Date: Mon, 14 Sep 2009 11:15:26 -0400
Message-ID: <4AAE5E0E.9000208@openlinksw.com>
To: Matthias Samwald <samwald@gmx.at>
CC: public-semweb-lifesci <public-semweb-lifesci@w3.org>, Anja Jentzsch <anja@anjeve.de>
Matthias Samwald wrote:
> I created a mapping between MeSH and DBpedia. The mapping is based on 
> explicit mentions of MeSH entries that can be extracted 
> Wikipedia/DBpedia. The preliminary result of this effort is a Turtle 
> file with 2600 rdfs:seeAlso. It can be found at
> http://samwald.info/res/dbpedia_mesh_mapping.ttl
>
> The statements look like this:
> <http://dbpedia.org/resource/Primary_motor_cortex> rdfs:seeAlso 
> <http://purl.org/commons/record/mesh/D009044> .
>
>
> I added the mapping to the HCLS Knowledge Base 
> (http://hcls.deri.org/sparql ). It can be queried like this:
>
> =====
> SELECT * WHERE {
> GRAPH <http://samwald.info/res/dbpedia_mesh_mapping.ttl>
>  {?s ?p ?o}
> }
> LIMIT 10
> =====
>
>
> For example, this allows us to use the DBpedia-MeSH-PubMed connection 
> to find PubMed abstracts that match a certain DBpedia entry. E.g, for 
> http://dbpedia.org/resource/Primary_motor_cortex, we can query the 
> HCLS Knowledge Base like this:
>
> =====
> PREFIX dbpedia_uri: <http://dbpedia.org/resource/Primary_motor_cortex>
> PREFIX dc: <http://purl.org/dc/elements/1.1/>
> PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
>
> SELECT ?pubmed_uri WHERE {
> GRAPH <http://samwald.info/res/dbpedia_mesh_mapping.ttl>
> { dbpedia_uri: rdfs:seeAlso ?mesh_uri . }
>
> GRAPH <http://purl.org/science/graph/medline/subject-headings>
> { ?pubmed_uri ?o ?mesh_uri . }
> }
> LIMIT 5
> =====
>
>
> Result:
> http://purl.org/commons/record/pmid/4319929
> http://purl.org/commons/record/pmid/4951845
> http://purl.org/commons/record/pmid/6015242
> http://purl.org/commons/record/pmid/4999957
> http://purl.org/commons/record/pmid/5633926
> [...]
>
>
> Further documentation and a link to the PHP script that was used to 
> generate the mapping: 
> http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/DBpedia_to_OBO_mapping
> I hope this is helpful to some people reading this list.
>
>
> Cheers,
> Matthias Samwald
>
> DERI Galway, Ireland
> http://deri.ie/
>
> Konrad Lorenz Institute for Evolution & Cognition Research, Austria
> http://kli.ac.at/
>
>
I'll put this mapping link data set into DBpedia under Graph IRI: 
<http://samwald.info/res/dbpedia_mesh_mapping#> .

I'll announce on LOD and DBpedia mailing list when done.

-- 


Regards,

Kingsley Idehen	      Weblog: http://www.openlinksw.com/blog/~kidehen
President & CEO 
OpenLink Software     Web: http://www.openlinksw.com
Received on Monday, 14 September 2009 15:16:03 UTC

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