Good Afternoon Shobha: You can fetch the knownGene table in GTF format with a command such as mentioned in this example:
http://www.mail-archive.com/[email protected]/msg03749.html As for corresponding cross references with the kgXref table, you can do that with the unix command 'join' to combine columns of kgXref with the knownGene GTF file. With this, you can get any name correspondence you desire and keep the results in the GTF format. --Hiram ----- Original Message ----- From: "Shobha Potluri" <[email protected]> To: "Antonio Coelho" <[email protected]> Cc: [email protected] Sent: Thursday, May 12, 2011 1:44:50 PM Subject: Re: [Genome] Uniprot IDs for given chromosome position Hi, Is there a way to get the knownGene table cross-referenced with hg19.kgXref (so that I can access the gene names) in GTF format? Thanks, Shobha. On Fri, Jun 11, 2010 at 11:43 AM, Antonio Coelho <[email protected]> wrote: > Hello Shobha, > > You can access this data by using the knownGene table in conjuction with the > kgXref table in our Table Browser (http://genome.ucsc.edu/cgi-bin/hgTables) _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
