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Re: GRDDL for clinical research data? (fwd)

From: Chimezie Ogbuji <ogbujic@bio.ri.ccf.org>
Date: Thu, 17 Aug 2006 15:51:46 -0400 (EDT)
To: w3c semweb hcls <public-semweb-lifesci@w3.org>
Message-ID: <Pine.GSO.4.60.0608171549500.4045@joplin.bio.ri.ccf.org>

I thought the HCLSIG would be interested in this exchange about scenarios 
for using GRDDL for clinical research data - along the lines of previous 
threads on using XML and RDF in unison.

Chimezie Ogbuji
Lead Systems Analyst
Thoracic and Cardiovascular Surgery
Cleveland Clinic Foundation
9500 Euclid Avenue/ W26
Cleveland, Ohio 44195
Office: (216)444-8593
ogbujic@ccf.org

---------- Forwarded message ----------
Date: Thu, 17 Aug 2006 14:38:15 -0500
From: Dan Connolly <connolly@w3.org>
To: Chimezie Ogbuji <ogbujic@bio.ri.ccf.org>
Cc: public-grddl-wg <public-grddl-wg@w3.org>
Subject: Re: GRDDL for clinical research data?

On Thu, 2006-08-17 at 15:12 -0400, Chimezie Ogbuji wrote:
>
> On Thu, 17 Aug 2006, Dan Connolly wrote:
>
>>
>> Chime,
>>
>> You mentioned clinical research data in our 1st meeting.
>>
>> I suspect that's an interesting XML Schema (or plain XML?) use case.
>>
>> Do you have any details you can share?
>
> Yes, absolutely.  Actually this is the primary motivation for joining the
> GRDDL WG.  We have been developing a clinical research data management
> system which uses XML as the 'main' representation format (organized
> around a patient record), edits the XML remotely (on a variety of devices)
> via XForms, submits the XML document (via HTTP PUT to a unique URI for
> each such record) to a server which (as part of the content management
> services) transforms the XML to an RDF equivalent graph for persistence.
>
> Ofcouse, the expense of dual representation is space, but the primary
> value is being able to query both as XML and as RDF (the latter being
> more amenable for investigative question that rely on alot more
> interpretation than a structured format such as XML will provide).
>
> A GRDDL approach could eleviate this expense by allowing a patient record (or any XML-based
> collection of clinical research data) to be queried semantically (via
> SPARQL) 'on demand' by associating a GRDDL profile to the specific patient
> record XML vocabulary.


A figure of this "before GRDDL" and "with GRDDL" ways of working
would be particularly nice.

> Imagine a fellow assigned to determine a search criteria to identify a
> patient population for a particular study.  He might have a set of
> classifications specific to the study he could express as logical rules
> (N3 rules).  Then, he could write a client (that understood
> GRDDL) that speculatively picked a few patient records at random from a
> remote server (as XML documents) each of which would be associated (by GRDDL
> profile) to a transform to extract the clinical data as RDF (expressed in
> a universally supported vocabulary for CPR - such as the HL7 OWL ontology
> that Helen Chen from Agfa has been working on) and ask his
> speculative questions of the resulting RDF graph.
>
> Or (to take the scenario a step further), apply the study specific rules
> on the resulting RDF to classify the patient data according to his domain
> of interest (specific diagnoses, pathological observations, etc..)

Bingo. That use case
   (1) is likely to be of interest to the healthcare/lifesci audience
and
   (2) motivates the use of GRDDL with XML vocabularies

Fabien, Danny, care to roll it in?

I'm tempted to do it myself... but I took an action to set up access
for Fabien. I think WebDAV might work out better for all concerned
than direct CVS/ssh access.
Let's see...
  from the WG homepage http://www.w3.org/2001/sw/grddl-wg/
  to the Art of Consensus Guide
  to the WebDAV docs http://www.w3.org/Guide/Jigedit/Webdav

Ah... I reached danny in #swig...
http://chatlogs.planetrdf.com/swig/2006-08-17#T19-34-22

--
Dan Connolly, W3C http://www.w3.org/People/Connolly/
D3C2 887B 0F92 6005 C541  0875 0F91 96DE 6E52 C29E
Received on Thursday, 17 August 2006 20:07:17 GMT

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