Hi Sarosh, You might find this helpful: http://genomewiki.ucsc.edu/index.php/Finding_nearby_genes
Please let us know if you have any additional questions: [email protected] - Greg Roe UCSC Genome Bioinformatics Group On 8/15/11 3:47 PM, Sarosh N. Fatakia wrote: > Hello experts, > > Hope you can please help. Is there a script that can help me do the > following iteratively. I am seeking to generate a list of genes within N bp > (N=500bp to 500 kbp in small intervals), upstream or downstream with respect > to some SNP_probe or rs_marker. Then I need to repeat the same for a given > set of such genomic markers. > > For example I have 10 markers, 3 of which are listed > { rs10188010, rs17032836, rs13396777, ....}. I need to extract a systematic > list of genes within N bp, upstream and downstream of these genomic markers. > Hope you can please help suggest some command line application / gui > application that can handle such a query. Thanks in advance. > Best, > sarosh > ______________________________ > > Sarosh N. Fatakia, PhD > > 530 45th Street > 8162 Rangos Research Center > University of Pittsburgh > Pittsburgh, PA 15201 > ----------------------------------------------------- > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
