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Re: Versioning vs Temporal modeling of Patient State

From: Trish Whetzel <whetzel@pcbi.upenn.edu>
Date: Thu, 11 Jan 2007 17:10:32 -0500 (EST)
To: William Bug <William.Bug@DrexelMed.edu>
cc: "Kashyap, Vipul" <VKASHYAP1@PARTNERS.ORG>, Nigam Haresh Shah <nigam@stanford.edu>, kc28 <kei.cheung@yale.edu>, Alan Ruttenberg <alanruttenberg@gmail.com>, w3c semweb hcls <public-semweb-lifesci@w3.org>
Message-ID: <Pine.LNX.4.61.0701111658130.25290@hera.pcbi.upenn.edu>

Hi Bill,

Interesting point.

> I'm pretty certain the nature, granularity, and meaning of versioning will 
> differ between the TBox and the ABox - at least that's my sense of things and 
> the way we've been proceeding on BIRNLex.  What I mean by that is I have a 
> pretty good sense of what an appropriate versioning policy is for the TBox. 
> In our work on BIRNLex - and even more so in the work the OBI group has been 
> doing, as well as work from the GO Consortium and the NCI Thesaurus - an 
> effort to define a set of AnnotationProperties to handle versioning in the 
> TBox is being assembled and put to use.
Can I point you back to a mail sent yesterday requesting more information 
on how BIRNLex is handling term deprecation and is the date that a term is 
deprecated critical versus the ontology release version in which it was 
deprecated? Have you had a chance to peruse the policy developed (with 
input from Gilberto) for MO? I'm curious to learn of similarities to 
that for BIRNLex. WRT to OBI, I am not aware that the OBI group has 
discussed term deprecation yet since this resource is still in the 
development versus production phase.

Also the resources you mention above are in different ontology 
representations, OWL vs OBO format. What work is the GO Consortium doing 
towards this issue? I am not familiar with the ability to traverse the 
graph to find replacement terms for deprecated terms in the OBO format 


> I'm not at all certain what versioning means in the ABox apart from the sort 
> of versioning one would apply to all identified resources such as that 
> provided via LSID, which as we all know here has its pros and cons.
Received on Thursday, 11 January 2007 22:10:44 UTC

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