Integrating Knowledge Presentation at SMWCon

Posted by on Apr 30, 2012 in Gene Wiki, genewiki+, mashup, semantic web, semantic wikipedia, SPARQL, wiki, wikipedia | 0 comments Our presentation at the Semantic MediaWiki Conference was a smashing hit! I discussed the software we developed to create GeneWiki+, which we’ve christened mwsync. Mwsync is a cool little Java framework that makes it easy to maintain a live mirror of any MediaWiki site that exposes the standard MediaWiki API. The framework copies over any changes made to the source site on a repeating basis...
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Gene Wiki SPARQL endpoint

Posted by on Apr 23, 2012 in Gene Wiki, genewiki+, semantic web, SPARQL, sulab | 0 comments Thanks to Leyla and Alex Garcia-Castro from UniProt and Florida State University respectively, we now have access to a SPARQL endpoint for the data in the Gene Wiki.  Access it live here:http://virtuoso.idiginfo.org/sparql(update on 4-28-12 , that is down and a live one is currently available athttp://199.102.237.69:8890/sparql)Here is one query that you might like to try that finds...
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Semantic Wiki Links article published

Posted by on Mar 22, 2012 in Gene Wiki, genewiki+, semantic links, semantic web, semantic wikipedia, sulab, SWL, wiki | 0 comments A while back, I posted an entry here called "Stepping towards a Semantic Wikipedia" that quickly became the most-visited post on this blog.  Today, after several months of waiting, I discovered by accident that the official peer-reviewed article on the same subject is now available (the editors never bothered to tell us that it came out).  The article elaborates on a pattern that allows...
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Publication review 2011

Posted by on Feb 6, 2012 in Gene Wiki, publication, semantic web, text-mining, wikipedia | 0 comments As the end of 2011 was a busy time grant-writing, I didn’t get an opportunity to highlight several recent publications that came out from our lab. Better late than never: Hu Y, Galkin AV, Wu C, Reddy V, Su AI (2011) CAFET Algorithm Reveals Wnt/PCP Signature in Lung Squamous Cell Carcinoma.PLoS ONE 6(10): e25807. (Full text) This paper described CAFET, a novel algorithm for...
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Stepping towards a Semantic Wikipedia

Posted by on Oct 7, 2011 in Gene Wiki, microformats, semantic links, semantic web, sulab, SWL, wikipedia | Comments Off (Update, check out our publication in Database for a full-length, peer-reviewed version of this article.)It is now possible to specify the nature of the relationships between things described by Wikipedia articles directly in the context of the article.  The image below is a screenshot taken a few moments ago of the Phospholamban article on Wikipedia (with excited arrows added).  The...
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