Pubmed mashup demo in a Virtuoso triplestore

This workflow build a mashup in your local virtuoso server (available at http://localhost:8890/sparql) by downloading the needed pubmed documents from NCBI and by converting them into N3 format.  Once all documents loaded into the triplestore you can query them with SPARQL.

For example try those queries :

SELECT count(*) WHERE {?s ?p ?o}

SELECT ?o, count(*)
WHERE {?s <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> ?o}

Dr Labrie's MeSH subject of interest :

SELECT ?o, count(*)
WHERE {?s <http://bio2rdf.org/ns/bio2drf#xMeSH> ?o}
ORDER BY DESC(count(*))

and is main collaborators :

SELECT ?o2, count(*)
WHERE {
  ?s <http://purl.org/dc/elements/1.1/creator> ?o1 . 
  FILTER (regex(?o1, "Labrie,F")) .
  ?s <http://purl.org/dc/elements/1.1/creator> ?o2 .
}
ORDER BY DESC(count(*))
LIMIT 30

Some questions that cannot be asked at Entrez ;-)

PS

For the Pubmed rdfiser to work you will need to download the Pubmed rdfiser : http://www.myexperiment.org/files/178