Hi Syed, I'm not sure that is the reason, because even though the GO IDs *seem* identical, the GO Descriptions, as seen in the image, are all different. Indeed, when I add the unique results only flag, I get the exact same result.
Seeing as the image didn't seem to have been passed, here is a bad cut-and-paste of the table (irrespective of the unique results flag): P32797 GO:0007049 CDC13 cell cycle P32797 GO:0007049 CDC13 physiological process P32797 GO:0007049 CDC13 cellular process P32797 GO:0007049 CDC13 cellular physiological process P32797 GO:0007049 CDC13 intracellular P32797 GO:0007049 CDC13 cell P32797 GO:0007049 CDC13 chromosome P32797 GO:0007049 CDC13 intracellular non-membrane-bound organelle P32797 GO:0007049 CDC13 non-membrane-bound organelle P32797 GO:0007049 CDC13 intracellular organelle* *Weirdly, when I remove the "GO Description" attribute, as I said in my first email, I get a result where the GO IDs seem to be properly displayed. P32797 GO:0007049 CDC13 P32797 GO:0007582 CDC13 P32797 GO:0009987 CDC13 P32797 GO:0050875 CDC13 P32797 GO:0005622 CDC13 P32797 GO:0005623 CDC13 P32797 GO:0005694 CDC13 P32797 GO:0043232 CDC13 P32797 GO:0043228 CDC13 P32797 GO:0043229 CDC13 So, what do you think is going on here? Thanks! :) 2009/1/23 Syed Haider <[email protected]> > Hi Allyson, > I am not sure why it dint reach mart-dev earlier on. The history is > available here: > > http://listserver.ebi.ac.uk/mailing-lists-archives/mart-dev/threads.html > > May be it never made it to the list because you were sending an attachment, > and its not possible to send attachments to the list :) > > Anyways, I guess the reason you see many GO IDs when you select Description > attribute is because of redundant rows against several Gene IDs and > associated GO IDs. The best is to try UniqueRows flag and see if that > removes the irrrelevant rows. > > Cheers > Syed > > > >> >> ---------- Forwarded message ---------- >> From: *Allyson Lister* <[email protected] <mailto: >> [email protected]>> >> Date: 2009/1/16 >> Subject: interpreting GO IDs >> To: "[email protected] <mailto:[email protected]>" >> <[email protected]<mailto: >> [email protected]>> >> >> >> Not sure if this made it to the mailing list the first time, so sending >> again. Apologies if you get it twice! >> >> >> >> >> Hi all, >> >> I've just run this query on the biomart.org <http://biomart.org> martview >> application: >> >> >> <?xml version="1.0" encoding="UTF-8"?> >> <!DOCTYPE Query> >> >> <Query virtualSchemaName = "default" formatter = "TSV" header = "0" >> uniqueRows = "0" count = "" datasetConfigVersion = "0.5" > >> >> <Dataset name = "uniprot" interface = "default" > >> >> >> >> <Filter name = "gene_name" value = "cdc13"/> >> <Attribute name = "sptr_ac" /> >> <Attribute name = "go_id" /> >> <Attribute name = "gene_name" /> >> >> >> >> <Attribute name = "go_name" /> >> </Dataset> >> </Query> >> >> And I get the attached result (screenshot). I may be extremely dense here, >> but why are all of the GO IDs the same for the first few GO descriptions? >> When I just choose GO ID (and not also GO description in the Attributes >> section, I get a variety of GO IDs. >> >> Anyone know what I'm doing wrong in querying or interpreting? >> >> Many thanks! >> >> -- >> >> Allyson Lister >> http://lurena.vox.com >> >> CISBAN, http://www.cisban.ac.uk >> Newcastle University >> >> >> >> -- >> >> Allyson Lister >> http://lurena.vox.com >> >> CISBAN, http://www.cisban.ac.uk >> Newcastle University >> >> >> >> -- >> >> Allyson Lister >> http://lurena.vox.com >> >> CISBAN, http://www.cisban.ac.uk >> Newcastle University >> >> ------------------------------------------------------------------------ >> >> -- Allyson Lister http://lurena.vox.com CISBAN, http://www.cisban.ac.uk Newcastle University
