- From: <sarala@ebi.ac.uk>
- Date: Tue, 26 Jun 2012 03:12:11 +0100
- To: "Helena Deus" <helenadeus@gmail.com>
- Cc: pierregrenon@gmail.com, "Michel Dumontier" <michel.dumontier@gmail.com>, "Michael Hucka" <mhucka@caltech.edu>, "HCLS hcls" <public-semweb-lifesci@w3.org>, laleh.kazemzadeh@deri.org
Hi Lena, We are interested in querying the underlying model representation as well. We want to be able to run SPARQL queries on different types of model/data repositories eg. cellml. It is not always possible to convert some of the model/data we work with to BioPAX. Our rdf schema consists of a general model representation followed by more specific representations for each standard. Cheers, Sarala > Hello Sarala, > > This is great - naive question: is there a reason why you didn't go with > the biopax representation? > Best, > Lena > > On Mon, Jun 25, 2012 at 10:46 AM, <sarala@ebi.ac.uk> wrote: > >> Hi Lena, >> >> I'm working on semantic interoperability of data and models. As part of >> this work, I have converted all curated sbml models in biomodels into >> RDF. >> It would be good to see what you have done, may be see were we can >> collaborate. I'm in the process of documenting my work but you can find >> the rdf models and the schema at >> https://sites.google.com/site/ricordowp4/file-cabinet/sbmltordf. These >> models are stored in a RDF store and can be queried via ws eg. >> http://wwwdev.ebi.ac.uk/ricordo-rdfstore-ws/service/search/getResources. >> A >> bit more documentation on this can be found at >> https://github.com/sarala/ricordo-rdfstore-ws. I will be uploading the >> converter code to github soon. Please let me know if your work is >> available to access online. >> >> Cheers, >> Sarala >> >> > Mike, >> > This might be of interest to harmony/combine folks - which mailing >> lists >> > might Lena post to do indicate she will be presenting on this topic? >> > >> > m. >> > >> > On Fri, Jun 22, 2012 at 12:09 PM, Me <helenadeus@gmail.com> wrote: >> > >> >> Hi Michael, >> >> >> >> My plan for the next telco is to have a much MUCH more hands-on >> focus >> >> than what we've had so far. Me and Laleh (my PhD student) are >> creating >> >> RDF >> >> representations of SBML models so that we can visualize with google >> >> fusion >> >> tables. We hope to have something to show by next telco. >> >> >> >> Best, >> >> Lena >> >> >> >> >> > -- >> > Michel Dumontier >> > Associate Professor of Bioinformatics, Carleton University >> > Chair, W3C Semantic Web for Health Care and the Life Sciences Interest >> > Group >> > http://dumontierlab.com >> > >> >> > > > -- > Helena F. Deus > Post-Doctoral Researcher at DERI/NUIG > http://lenadeus.info/ >
Received on Tuesday, 26 June 2012 11:59:00 UTC