Hi Greg,
I will give it a try! Thank you, Phil ________________________________ From: Greg Roe [mailto:[email protected]] Sent: Monday, November 22, 2010 3:13 PM To: Philipp Kapranov Cc: [email protected] Subject: Re: [Genome] converting UCSC Genes Ids into gene names Hi Philipp, You can convert gene IDs into gene names using the Table Browser (Tables). Here are the steps: - Select clade, genome, assembly of interest - Select group: Genes and Gene Prediction Tracks - Select track: UCSC Genes - Select: table kgXref - For identifiers, either upload your list of gene IDs, or paste them in using the "paste list" button - Select output format: selected fields from primary and related tables - Click Get Output On the resulting screen: - Check kgID and geneSymbol - click "get output" You should get out put that looks like: #kgID geneSymbol uc001aal.1 OR4F5 uc001aaq.1 DQ599874 uc001aar.1 DQ599768 uc001aax.1 BC036251 uc001aba.1 X64709 uc001abv.1 SAMD11 uc001abw.1 SAMD11 uc001abx.1 SAMD11 uc001aca.1 KLHL17 uc001acb.1 KLHL17 uc001acc.1 KLHL17 uc009vjh.1 OR4F5 uc009vjn.1 LOC643837 uc009vjo.1 LOC643837 Let me know if you have any additional questions. - Greg Roe UCSC Genome Browser On 11/22/10 11:17 AM, Philipp Kapranov wrote: Hello, I would like to convert human UCSC Genes Ids into "common" gene names, for example uc010ntk.1 into GABRA3. I have to admit that I could not find a table that does it and we have a paper in review where we provide data based on the UCSC Genes Ids and one of the reviewers wants them to be converted into gene names. Could you please point me to the appropriate table? Thank you, Phil Philipp Kapranov Principal Genomics Scientist Helicos BioSciences Corporation One Kendall Square, Building 700 Cambridge, MA 02139 Tel: 408-420-0381 Fax: 617-264-1725 Email: [email protected] <mailto:[email protected]> <mailto:[email protected]> _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
