Hi, Paco, If you want to do it all programmically from Java, I would suggest Googling a protocol called DAS. ENSEMBL has a DAS server from which you should be able to pull GO annotations for ENSEMBL IDs quite easily.
You can find java-based libraries to access a DAS connection, and parse the resulting information here: http://www.spice-3d.org/dasobert/. Good luck! Charles 2008/2/12 ocean <[EMAIL PROTECTED]>: > Hey,Paco > > i think you can try BIOMART(www.biomart.org). this database had done such > thing already. > you can contract them for some help. > > good luck! > > Huhaiyang > > > > > 在2008-02-12，"Paco B C" <[EMAIL PROTECTED]> 写道： > > > Hi! > this is my first message in this list. My name is Paco and I'm doing my PhD. > on Bioinformatics in University of Leuven, Belgium. > I would like to build a java module that, given a list of Ensembl Gene > Identifiers, it would give back their related Gene Ontology terms. I've > accessed the GO database, but I can't find ENSG terms and I've read in the > Ensembl website that they give the link to external databases for > translation and transcript objects but not for genes (maybe in the future, > but not now). > My question is, do you know which database could I query in order to get > this relation within Ensembl and GO terms? > Thanks! > Paco > _______________________________________________ > BBB mailing list > [email protected] > http://www.bioinformatics.org/mailman/listinfo/bbb > _______________________________________________ > BBB mailing list > [email protected] > http://www.bioinformatics.org/mailman/listinfo/bbb > _______________________________________________ BBB mailing list [email protected] http://www.bioinformatics.org/mailman/listinfo/bbb
