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RE: Martone's Ontology

From: Kashyap, Vipul <VKASHYAP1@PARTNERS.ORG>
Date: Thu, 11 Jan 2007 19:43:43 -0500
Message-ID: <2BF18EC866AF0448816CDB62ADF6538105EAF0A2@PHSXMB11.partners.org>
To: "William Bug" <William.Bug@DrexelMed.edu>
Cc: "Donald Doherty" <donald.doherty@brainstage.com>, "public-semweb-lifesci" <public-semweb-lifesci@w3.org>
If it makes sense, we could put it on the agenda item for the next BIONT Telcon?

 

---Vipul

 

________________________________

From: William Bug [mailto:William.Bug@DrexelMed.edu] 
Sent: Thursday, January 11, 2007 6:05 PM
To: Kashyap, Vipul
Cc: Donald Doherty; public-semweb-lifesci
Subject: Re: Martone's Ontology

 

By the way, while we're on the topic, there's another very useful ontology which
we certainly want to have on our list of relevant ontologies.  It addresses some
of the issues directly relevant to both Use Cases and the issue Don brought up
at the start of this thread - "describing distributions or receptors on a cell,
locations of various processes in a cell" - in this case, for neuronal synapses.

 

SynDB: a Synapse protein DataBase based on synapse ontology.

 
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=pubmed&cmd=Retrieve&dopt=Abstra
ctPlus&list_uids=17098931&query_hl=1&itool=pubmed_docsum

 

Again - as I mentioned before, we also want to review this issue with the BioRDF
folks - e.g., confer with Kei on his sense of what relevant TBox structure is
provided in the SenseLab resource - and we should definitely review this issue
with Matthias.

 

Cheers,

Bill

 

On Jan 11, 2007, at 3:50 PM, Kashyap, Vipul wrote:





Do you mean create a page on the BioONT Wiki where we list  URLs pointing to the
OWL files for these ontologies for anyone to view in their favorite OWL editor?
We probably have that already, right?

[VK] Actually, we don't and that would be a good idea as well!

 

Would you rather have the content of the ontologies set up on a page we can
comment on?  That's not so easy to do, though for SAO and for the BIRNLex
ontology, I'd be able to get us access to OWLDoc versions folks could easily
navigate through in a web browser.

[VK] That would be a better and more "readable" idea.... Might be as simple as
taking at text non-xml version of the OWL ontologies...

       We sort of need to start building up a collection of ontologies and data
sources as we start building up the use cases...

 

Just thinking aloud... Feel free to suggest alternate configurations.

 

---Vipul

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Bill Bug

Senior Research Analyst/Ontological Engineer

 

Laboratory for Bioimaging  & Anatomical Informatics

www.neuroterrain.org

Department of Neurobiology & Anatomy

Drexel University College of Medicine

2900 Queen Lane

Philadelphia, PA    19129

215 991 8430 (ph)

610 457 0443 (mobile)

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Please Note: I now have a new email - William.Bug@DrexelMed.edu

 

 





 





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Received on Friday, 12 January 2007 00:44:32 UTC

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