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Re: BioRDF Telcon - Provenance related information

From: Satya Sahoo <sahoo.2@wright.edu>
Date: Mon, 11 May 2009 18:36:41 -0400
To: Kei Cheung <kei.cheung@yale.edu>
Cc: HCLS <public-semweb-lifesci@w3.org>
Message-id: <6a108e8f5d33b.4a087039@wright.edu>
Hi all,
This is pursuant to our provenance-related discussion during the telecon earlier today. As part of our collaborative RO1 with the national center for biomedical ontologies (NCBO) called "Tcruzi SPSE" (http://wiki.knoesis.org/index.php/Trykipedia), we have developed an upper-level reference ontology for provenance called "provenir" modeled in OWL-DL. 
 
Provenir was developed using the OBO Foundry principles (and has been recently submitted to the OBO foundry for review), details are at: http://wiki.knoesis.org/index.php/Provenir_Ontology. We have extended Provenir ontology to create a Parasite Experiment ontology (http://wiki.knoesis.org/index.php/Parasite_Experiment_ontology) for provenance of transcriptome and gene knockout data. 
 
As Kei mentioned, we have proposed to organize a workshop at ISWC 2009 on the role of Semantic Web in provenance management (keynote by Dr. Carole Goble, if the workshop proposal is accepted). Further details are at: http://wiki.knoesis.org/index.php/SWPM-2009. 
 
A couple of references discussing our work in detail:
1. Semantic Provenance for eScience - http://knoesis.wright.edu/library/resource.php?id=00310. This paper gives a broad overview of our approach with an use case from the glycobiology domain
2. An Algebra and RDF Query Engine for Provenance - http://knoesis.wright.edu/library/resource.php?id=00706. This paper discusses the technical details of a Provenir ontology-based algebra we have proposed for provenance and an implementation of a provenance query engine over Oracle10g RDF store
 
I will be happy to discuss further details of our work in future telecons.
 
Cheers,
Satya Sahoo
http://knoesis.wright.edu/researchers/satya

----- Original Message -----
From: Kei Cheung <kei.cheung@yale.edu>
Date: Monday, May 11, 2009 1:38 pm
Subject: Re: BioRDF Telcon
To: HCLS <public-semweb-lifesci@w3.org>

> The minutes for today's BioRDF minutes are available at:
> 
> http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/Meetings/2009-05-
> 11_Conference_Call
> Thanks to Rob for scribing.
> 
> Cheers,
> 
> -Kei
> 
> Kei Cheung wrote:
> > This is a reminder that the next BioRDF teleconf. will be held 
> at 11 
> > am EDT (5 pm CET) on Monday, May 11 (see details below).
> >
> > Cheers,
> >
> > -Kei
> >
> > == Conference Details ==
> > * Date of Call: Monday May 11, 2009
> > * Time of Call: 11:00 am Eastern Time
> > * Dial-In #: +1.617.761.6200 (Cambridge, MA)
> > * Dial-In #: +33.4.89.06.34.99 (Nice, France)
> > * Dial-In #: +44.117.370.6152 (Bristol, UK)
> > * Participant Access Code: 4257 ("HCLS")
> > * IRC Channel: irc.w3.org port 6665 channel #hcls (see 
> > [http://www.w3.org/Project/IRC/ W3C IRC page] for details, or 
> see 
> > [http://cgi.w3.org/member-bin/irc/irc.cgi Web IRC])
> > * Duration: ~1 hour
> > * Frequency: bi-weekly
> > * Convener: Kei Cheung
> >
> > == Agenda ==
> > * Roll call and introduction (Kei)
> > * HCLS F2F BioRDF update and follow-up (All)
> > * Finalize revisions of the BMC Bioinformatics paper (All)
> >
> 
> 
> 
Received on Monday, 11 May 2009 22:38:33 GMT

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