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RE: Performance issues with OWL Reasoners => subclass vs instance-of

From: Kashyap, Vipul <VKASHYAP1@PARTNERS.ORG>
Date: Mon, 18 Sep 2006 14:06:50 -0400
Message-ID: <2BF18EC866AF0448816CDB62ADF6538104C16573@PHSXMB11.partners.org>
To: "Robert Stevens" <robert.stevens@manchester.ac.uk>, "chris mungall" <cjm@fruitfly.org>, "Phillip Lord" <phillip.lord@newcastle.ac.uk>
Cc: <semantic-web@w3.org>, <public-semweb-lifesci@w3.org>

> Chris is right, but the IS itself has no view on the matter. it does,
> I believe, play some tricks inside making instances classes to do the
> reasoning. What the user sees are instances. When we use the IS to
> classify proteins, we have a class "p53" and we translate all the
> genes in a genome into  their protein and classify. In this way we
> find instances of the defined proteins classes (in our case
> phosphtases). it is not "real" in that the one  gene  is only
> trnslated into one protein, but it is still an instance, it is simply
> not realistic. We weren't doing syste4m bioogy!

I have a feeling I am misreading this in some way. It appears that you are
behind the scenes translating instances into classes anyway, so why not start
with the "ontologically correct" approach of modeling genes as classes anyway?

Is there a paper which discusses this mapping and the subsequent processing in
more detail?


Received on Monday, 18 September 2006 18:07:11 UTC

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