Hi Eric, The kgXref table contains a geneSymbol field. You can download the kgXref file and use Unix command line tools to join the tables: http://genomewiki.ucsc.edu/index.php/Genes_by_any_other_name
Alternatively, you can use the Table Browser (http://genome.ucsc.edu/cgi-bin/hgTables). Select the knownGene table, and then "output format: selected fields from primary and related tables." On the next page, scroll down to the kgXref table and check the geneSymbol box. If you have further questions, please feel free to contact us again at [email protected]. -- Brooke Rhead UCSC Genome Bioinformatics Group On 07/16/11 10:58, Eric Foss wrote: > Dear UCSC Genome, > > I am having a lot of trouble with getting the UCSC gene names converted to more normal names - like Hugo Symbol names. I have the kgAlias.txt file, but that file seems to match up UCSC names to quite a few other names, many of which are no more biologically meaningful than the original UCSC name. Can I download a file that is just like the knownGene.txt file (having gene name, chromosome, strand, transcription start, transcription stop, coding sequence start, coding sequence stop, number of exons, exon starts, exon stops, etc.) except where the gene name is a Hugo Symbol gene name? > > Thank you. > > Eric > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
