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RE: [BIONT-DSE] Inclusion versus exclusion criteria

From: Kashyap, Vipul <VKASHYAP1@PARTNERS.ORG>
Date: Wed, 12 Sep 2007 22:44:53 -0400
Message-ID: <DBA3C02EAD0DC14BBB667C345EE2D124010EFA9F@PHSXMB20.partners.org>
To: "Kavitha Srinivas" <ksrinivs@gmail.com>
Cc: <wangxiao@musc.edu>, "Alan Ruttenberg" <alanruttenberg@gmail.com>, "Andersson, Bo H" <Bo.H.Andersson@astrazeneca.com>, "Landen Bain" <lbain@topsailtech.com>, "Rachel Richesson" <Rachel.Richesson@epi.usf.edu>, "public-semweb-lifesci hcls" <public-semweb-lifesci@w3.org>, <public-hcls-dse@w3.org>, "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>, "Bron W. Kisler" <bkisler@earthlink.net>, "Ida Sim" <sim@medicine.ucsf.edu>

> Just a quick correction -- the SHER reasoner is different from the
> CEL reasoner, because it is built on
> the standard tableau algorithm (internally SHER uses Pellet).  It
> supports the SHIN subset of DL
> (in OWL DL terms, no nominals).

[VK] Thanks for the clarification. Now it falls into place.

> In the clinical trials data, we model negations in the lab data
> (e.g., lab results ruled out the presence of an organism, A) as
> saying that for this particular lab event, any
> causative agent it might have cannot be A.  In DL terms, this is a
> universal restriction, that propagates a concept (not A) along the
> causative Agent edge.  

[VK] So let's say we represent this as:

LabResultNegativeForA < LabResult AND (ALL causativeAgent (NOT A)) 


> If you now want to find
> a lab event which indicated the presence of some Agent (X) and not A,
> you will again miss things using SQL, because all you will have in
> the actual database is that a lab event has a causative Agent X, and
> the lab Event is a member of a universal restriction
> forAll.causativeAgent.not(A). 

[VK] I think if we just had an A without the NOT A, the above is expressible as
an SQL query. The NOT A makes it tricky, but I think it is expressible.
Will need to check.

Do you have other examples?

---Vipul



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Received on Thursday, 13 September 2007 02:45:12 UTC

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