Hello Mali, Your best bet for converting mouse IDs is to use our blastTab tables. You can read more about how to do that in this previously answered mailing list question:
https://lists.soe.ucsc.edu/pipermail/genome/2007-April/013402.html The method above takes ucsc gene ids (i.e. uc001aci.1) so you might need to convert your gene IDs to the ucsc equivalent. You can also do this in the Table browser (http://genome.ucsc.edu/cgi-bin/hgTables) select: group: Genes and Gene Prediction Tracks tracks: UCSC genes tables: kgXref then click on "identifiers (names/accessions) and you can paste your list refSeq or other identifiers. Hopefully this information was helpful and answers your question. If you have further questions or require clarification feel free to contact the mailing list at [email protected]. Regards, Pauline Fujita UCSC Genome Bioinformatics Group http://genome.ucsc.edu On 11/22/11 10:08 PM, mali salmon wrote: > Thanks Steve for your reply. > I have tried to follow the instructions in the mail you have mentioned, but > with no success, probably since the tables mentioned there do not exist for > mouse. > I have mouse gene IDs (refseq and gene symbol) and I would like to get > their human IDs. So basically I would like to have two-column table, the > first will be the mouse ID (refseq or symbol) and the second the human ID. > Thanks again > Mali > > > On Wed, Nov 23, 2011 at 12:25 AM, Steve Heitner<[email protected]> wrote: > >> Hello, Mali. >> >> What you mention can be done with the Table Browser. If you ever need >> assistance with the Table Browser, you can also check out the User's Guide >> at http://genome.ucsc.edu/goldenPath/help/hgTablesHelp.html. >> >> Your reference genome will have to have an "Other RefSeq" track in order >> for >> this to be possible. Please see the previously answered mailing question >> at >> https://lists.soe.ucsc.edu/pipermail/genome/2011-November/027623.html. >> Please note that the instructions will obviously differ slightly depending >> on which genomes you're interested in. >> >> Please contact us again at [email protected] if you have any further >> questions. >> >> --- >> Steve Heitner >> UCSC Genome Bioinformatics Group >> >> -----Original Message----- >> From: [email protected] [mailto:[email protected]] On >> Behalf Of mali salmon >> Sent: Tuesday, November 22, 2011 3:31 AM >> To: [email protected] >> Subject: [Genome] gene IDs conversion between species >> >> Dear Sir/Madam >> I would like to do cross species conversions of gene IDs. Is it possible >> using the table browser? >> Looking forward to your reply >> Thanks >> Mali >> _______________________________________________ >> Genome maillist - [email protected] >> https://lists.soe.ucsc.edu/mailman/listinfo/genome >> >> > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
