Hi, Aharon. They are in the knownGenes table, it's just that knownGenes does not store Gene Names, only UCSC gene ids (e.g. uc001yrt.2 (which corresponds to gene name IGHA2)). You can get the Gene Names from the kgXRef table. See these previous mailing list questions for details:
https://lists.soe.ucsc.edu/pipermail/genome/2011-July/026488.html https://lists.soe.ucsc.edu/pipermail/genome/2008-July/016852.html You can join the tables on hg18.knownGene.name + hg18.kgXref.kgID. Please let us know if you have any additional questions: [email protected] - Greg Roe UCSC Genome Bioinformatics Group On 7/2/12 8:58 AM, Aharon Brodie wrote: > Hello, > I've previously asked how to download a list of all (Human) genes and their > locations. I was told to use this datafile- > ftp://hgdownload.cse.ucsc.edu/goldenPath/hg18/database/knownGene.txt.gz > I have found genes that appear on your site but not in this file, such as > IGHA2, IGHA1, IGKC. > Is the knownGene file not complete? > Thanks for your help, > -Aharon > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
