- From: Erick Antezana <erick.antezana@gmail.com>
- Date: Fri, 6 Apr 2012 17:43:14 +0200
- To: "Bhat, Talapady N." <talapady.bhat@nist.gov>
- Cc: bin chen <binchen@indiana.edu>, public-semweb-lifesci <public-semweb-lifesci@w3.org>, "Plant, Anne L. Dr." <anne.plant@nist.gov>, "Elliott, John T." <john.elliott@nist.gov>
Hi, is it possible to get the relational database schema you use? and a database dump? how often do you update your system? cheers, Erick On 6 April 2012 15:29, Bhat, Talapady N. <talapady.bhat@nist.gov> wrote: > Hi, > > Because you mentioned about ontology (GO) in the context of relational > databases I thought you may be interested in looking into our site where we > incorporated over 99 large ontology into a relational database. Most of > these large ontology were originally obtained from GO. > > http://xpdb.nist.gov/bioroot/bioroot.pl > > The above Web resource allows a user to selectively query and download > custom made section of any of the ontology for his/her needs in simple Excel > format > > Below is a link to a recent BMC paper where we discuss a new approach for > building and reasoning ontology in a federated set up. > > http://www.biomedcentral.com/1471-2105/12/487 > > > > An example of this approach for cell image data is in > http://sbd.nist.gov/image/cell_image.html > > > > > > Similar approach for building and reasoning rule-based ontology for chemical > structures are implemented for several million compound in the URL shown > below > > http://xpdb.nist.gov/chemblast/pdb.pl > > > > Let me know if you have any comments > > > > T N Bhat > > > > > > From: binchenindiana@gmail.com [mailto:binchenindiana@gmail.com] On Behalf > Of bin chen > Sent: Thursday, April 05, 2012 4:10 PM > To: public-semweb-lifesci > Subject: reasoning on gene ontology > > > > Hi, > > > > Does anyone perform some reasoning using gene ontology? Any intereting story > to share? I recently ran reasoning based on extended GO relations [1], and > found that the triples doubled after reasoning. I was also aware of some > queries are not able to be performed in relational database. but I havenot > found very interesing cases to utlize the inferred results. Any reference? > Thanks. > > > > Best, Bin > > [1] http://www.geneontology.org/GO.ontology-ext.relations.shtml > > > -- > Bin Chen > PHD student, Informatics, > Indiana University at Bloomington > http://cheminfo.informatics.indiana.edu/~binchen
Received on Friday, 6 April 2012 15:43:44 UTC