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Re: [hcls] Extracting conclusion sections from PubMed abstracts and turning them into linked data

From: Matthias Samwald <samwald@gmx.at>
Date: Thu, 17 Sep 2009 15:38:27 +0200
Message-ID: <7AE369EA14E44745A4CD185C4181B661@ms>
To: "public-semweb-lifesci" <public-semweb-lifesci@w3.org>
Please use this link instead:

Seems like the submissions to Nature Precedings are not cleared for public 
access instantly.


From: "Matthias Samwald" <samwald@gmx.at>
Sent: Thursday, September 17, 2009 3:07 PM
To: "public-semweb-lifesci" <public-semweb-lifesci@w3.org>
Subject: [hcls] Extracting conclusion sections from PubMed abstracts and 
turning them into linked data

> I did some preliminary work making use of conclusion sections in 
> abstracts, representing them using Semantic Web / Linked Data technologies 
> and aligning it with existing datasets produced by the HCLS IG. The e-mail 
> became so long that I decided to turn it into a pre-print publication.
> Direct link to PDF:
> http://precedings.nature.com/documents/3775/version/1/files/npre20093775-1.pdf
> ======
> Extracting conclusion sections from PubMed abstracts for rapid key 
> assertion integration in biomedical research
> Available from Nature Precedings
> <http://precedings.nature.com/documents/3775/version/1>
> Key assertions are extracted from "conclusions" sections of PubMed 
> abstracts
> and converted into Semantic Web / Linked Data format. The results are made
> accessible via  files, a SPARQL endpoint, and a  faceted search interface.
> Conclusion sections are identified as valuable resources for
> machine-augmented key assertion identification and integration in the
> biomedical domain.  Results are discussed and opportunities for future 
> work
> and cooperation are highlighted.
> ======
> If you just want to have a quick look at the outcome without bothering 
> reading the paper, then:
> 1) have a look at http://hcls.deri.org/atag/explorer/
> (works in every browser except IE. This is just a rough prototype, it 
> still does not link back to source / evidence etc.).
> 2) do a search for "Schizophrenia"
> 3) Further narrow down search results by entering additional search terms 
> or selecting facet values on the left.
> I'm happy about feedback. I look forward to integrate this with other 
> ongoing work in the HCLS IG. Together with Anja I will also look into 
> making data from the LODD task available in the search interface above (a 
> large part of SIDER has already been integrated, for example).
> Cheers,
> Matthias Samwald
> DERI Galway, Ireland
> http://deri.ie/
> Konrad Lorenz Institute for Evolution & Cognition Research, Austria
> http://kli.ac.at/ 
Received on Thursday, 17 September 2009 13:39:02 UTC

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