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RE: Proposal from the BioRDF Sub-Group

From: Cutler, Roger (RogerCutler) <RogerCutler@chevron.com>
Date: Tue, 7 Feb 2006 11:37:31 -0600
Message-ID: <0C237C50B244FD44BE47B8DCE23A3052011C628C@HOU150NTXC2MC.hou150.chevrontexaco.net>
To: "davide" <davide@landcglobal.com>, "Susie Stephens" <susie.stephens@oracle.com>, public-semweb-lifesci@w3.org
I say, "Never turn down a volunteer".  I would be very interested in
seeing such a demonstration, and I don't think it matters much what
subgroup it comes out of.  It seems likely to me, however, that it might
work well in this context because it might be possible to leverage
somehow whatever specific datasets, ontologies and techniques are being
used as examples of other ways of generating RDF.


From: public-semweb-lifesci-request@w3.org
[mailto:public-semweb-lifesci-request@w3.org] On Behalf Of davide
Sent: Monday, February 06, 2006 8:52 AM
To: 'Susie Stephens'; public-semweb-lifesci@w3.org
Subject: RE: Proposal from the BioRDF Sub-Group

Thanks Susie,

I'm wondering if we are going to include free-text as a data source to
be RDF/OWL-integrated. This should also be cleared with the other
sub-sub group (Bob Futrelle) which is going along the same lines. I
would like to propose that we include nlp in our demo since the data
integration result would be more convincing and I volunteer to support
that part specifically.

If that's ok I can edit the draft accordingly.






From: public-semweb-lifesci-request@w3.org
[mailto:public-semweb-lifesci-request@w3.org] On Behalf Of Matthias
Sent: Sunday, February 05, 2006 1:44 PM
To: Susie Stephens; public-semweb-lifesci@w3.org
Subject: Re: Proposal from the BioRDF Sub-Group


I'm working on a PhD thesis that encompasses the use of OWL in
neuroscience, so I might be of help for your project. At the moment we
are converting existing data from neuroscientific databases (Ki
database, ligand gated ion channel database, IUPHAR receptor database
and others). These sources are a mixture of relational databases, XML
and plain text. I have extended the BioPAX OWL ontology to represent the
concepts of these databases, but the conversion of real data is still
far from complete.


Further extensions could include the conversion of the cell centered
database (microscopic images of neurons), OMIM (hereditary diseases) and
some psychopharmacological databases. This would result in ontologies
that span "from bench to bedside", as postulated in the proposal.


The BioRDF proposal sounds really interesting and has much in parallel
with the work I am doing, so I am looking forward to contribute to this


kind regards,







> I've attached the draft proposal from the BioRDF sub-group.
> Please let me know if you have any comments or suggestions.
> Once we have everyone's feedback, lets schedule a call to discuss
> action items.
> Cheers,
> Susie
Received on Tuesday, 7 February 2006 18:53:22 UTC

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