Hi Chris, The easiest way to do this is to use the table browser (http://genome.ucsc.edu/cgi-bin/hgTables). First, select your genome, assembly and gene track of interest. Next, enter the list of genes you are interested in by clicking either "paste list" or "upload list" after "identifiers (names/accessions)". Make sure that your gene list has the correct types of identifiers by looking at the examples offered. Next, select BED as your output format, enter an output file name if desired and click "get output". On the configuration page, select "Coding Exons" and click "get BED".
I hope this information is helpful. Please feel free to contact the mail list again if you require further assistance. Best, Mary ------------------ Mary Goldman UCSC Bioinformatics Group ----- Original Message ----- From: "Chris Dias" <[email protected]> To: [email protected] Sent: Monday, November 15, 2010 10:35:36 PM GMT -08:00 US/Canada Pacific Subject: [Genome] Create CDS BED files Hello, Is it possible to creat a BED file with the coding regions of a list of genes on UCSC genome browser? If so, how can I do that? Many thanks, Chris Dias _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
