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RE: Clinical Trial Eligibility draft ontology - a start

From: Kashyap, Vipul <VKASHYAP1@PARTNERS.ORG>
Date: Tue, 16 Oct 2007 06:11:24 -0400
Message-ID: <DBA3C02EAD0DC14BBB667C345EE2D124010F01D4@PHSXMB20.partners.org>
To: "Helen Chen" <helen.chen@agfa.com>
Cc: "Bron W. Kisler" <bkisler@earthlink.net>, "Joey Coyle" <joey@xcoyle.com>, "Landen Bain" <lbain@topsailtech.com>, <public-hcls-dse@w3.org>, "public-semweb-lifesci hcls" <public-semweb-lifesci@w3.org>, <public-semweb-lifesci-request@w3.org>, "Stanley Huff" <Stan.Huff@intermountainmail.org>, "Oniki, Tom (GE Healthcare, consultant)" <Tom.Oniki@ge.com>, "Yan Heras" <Yan.Heras@intermountainmail.org>
Helen,

 

Thanks for tee ontology. Looks like a good start.

One important issue we need to keep in mind is the Semantic Web approach of
re-using data, information 

models and ontologies. So would propose the following:

1.	Let's try to re-use existing clinical models, e.g., DCM, SDTM and BRIDG
as there have been man years of effort put in these.
2.	After we discover the gaps in these models vis--vis our use
cases/requirements, we will then try to supplement those
	gaps using other ontologies such as yours, Chimezie's, Alan Rector's
work and Barry Smith's Clinical Trials Ontology

 

Look forward to a good discussion at 11:00am

 

---Vipul

 

________________________________

From: Helen Chen [mailto:helen.chen@agfa.com] 
Sent: Monday, October 15, 2007 11:14 PM
To: Kashyap, Vipul
Cc: Bron W. Kisler; Joey Coyle; Landen Bain; public-hcls-dse@w3.org;
public-semweb-lifesci hcls; public-semweb-lifesci-request@w3.org; Stanley Huff;
Oniki, Tom (GE Healthcare, consultant); Yan Heras
Subject: Clinical Trial Eligibility draft ontology - a start

 


Vipul and all 

Rachel and I started to work on a very rough draft of CT Eligibility ontology.
This is only a beginning and provides a starting point for some discussion.  We
looked at the eligibility listed in the sample trials outlined in Rachel's use
cases.  We can refine the ontology according to your functional requirements
along the way.  Maybe it is still too early to talk about the demo, but the
ontology may evolve into something we can use in the demo. 

I updated the draft version on wiki page here 

http://esw.w3.org/topic/HCLS/OntologyTaskForce/BIONTDSEDCM?action=AttachFile&do=
get&target=CTEligibility.owl 

This ontology uses some OWL1.1 constructs and pellet 1.5 should be able to
classify 
  
Helen 






"Kashyap, Vipul" <VKASHYAP1@PARTNERS.ORG> 
Sent by: public-semweb-lifesci-request@w3.org 

10/15/2007 10:20 PM 

To

"public-semweb-lifesci hcls" <public-semweb-lifesci@w3.org>,
<public-hcls-dse@w3.org> 

cc

"Stanley Huff" <Stan.Huff@intermountainmail.org>, "Yan Heras"
<Yan.Heras@intermountainmail.org>, "Oniki, Tom (GE Healthcare, consultant)"
<Tom.Oniki@ge.com>, "Joey Coyle" <joey@xcoyle.com>, "Landen Bain"
<lbain@topsailtech.com>, "Bron W. Kisler" <bkisler@earthlink.net> 

Subject

Clinical Research Protocols: Fucntional Requirements

 

 

 





Hi, 
  
An initial functional requirements document is attached with this e-mail. 
It has also been posted on the wiki. 
  
Look forward to a good discussion tomorrow. 
  
Cheers, 
  
---Vipul 
  

 

________________________________


From: public-hcls-dse-request@w3.org [mailto:public-hcls-dse-request@w3.org] On
Behalf Of Kashyap, Vipul
Sent: Tuesday, October 09, 2007 12:42 PM
To: public-semweb-lifesci hcls; public-hcls-dse@w3.org
Cc: Stanley Huff; Yan Heras; Oniki, Tom (GE Healthcare, consultant); Joey Coyle;
Landen Bain; Bron W. Kisler
Subject: [BIONT-DSE][COI] Clinical Observations Interoperability Telcon October
16th, Tuesday 11:00am - 12:00pm US EDT 
  
Clinical Observations Interoperability Telcon 
  
http://esw.w3.org/topic/HCLS/OntologyTaskForce/BIONTDSEDCM
<http://esw.w3.org/topic/HCLS/OntologyTaskForce/BIONTDSEDCM>  
  
Date and Time: 
October 16th, Tuesday 11:00am - 12:00pm EDT 
  
Agenda 
1.   Semantic Web Related questions from Landen Bain, Bron Kissler and Tom Oniki
- Alan to post minutes and discuss feedback 
2.   Functional Requirements distillation from Rachel's Use Cases: Vipul 
3.   Discuss approach Model Evaluation wrt Functional Requirements - Stan/Tom,
Bo/Kerstin, Alan 
4.   Next Steps: Discuss Terminology Issues 
5.   Next Steps: Identify Technical Tasks 
6.   Feedback and Refinement of F2F Agenda... 
 
http://esw.w3.org/topic/HCLS/OntologyTaskForce/BIONTDSEDCM/November07F2FAgenda.h
tml
<http://esw.w3.org/topic/HCLS/OntologyTaskForce/BIONTDSEDCM/November07F2FAgenda.
html>  
  
Telcon Details: 
  

Phone 

+1 617 761 6200, conference 24668 ("BIONT") 

IRC 

irc://irc.w3.org:6665/hcls 

Browser-based IRC client 

http://www.w3.org/2001/01/cgi-irc


  
  
Feel free to annotate wiki page above with feedback and suggestions. 
  
Cheers, 
  
---Vipul 
  
======================================= 
Vipul Kashyap, Ph.D. 
Senior Medical Informatician 
Clinical Informatics R&D, Partners HealthCare System 
Phone: (781)416-9254 
Cell: (617)943-7120 
http://www.partners.org/cird/AboutUs.asp?cBox=Staff&stAb=vik
<http://www.partners.org/cird/AboutUs.asp?cBox=Staff&stAb=vik>  
  
To keep up you need the right answers; to get ahead you need the right questions

---John Browning and Spencer Reiss, Wired 6.04.95 
  
  
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Received on Tuesday, 16 October 2007 10:11:43 GMT

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