Hello Amyere, You can use the Table browser to export a list of gene symbols based on coordinates:
general path: 1) http://genome.ucsc.edu/cgi-bin/hgTables 2) set clade, genome, assembly, group=Gene and Gene Predictions, track=UCSC Genes 3) now paste or upload your coordinates using the region button "define regions" please note the formatting instructions on the form 4) output format: select fields from primary and related tables name output file for download and submit 5) the next form with allow you to choose the fields to export, including kgXref.geneSymbol submit 6) data columns in output will be named I noticed that your example region has a few problems. The region is not based on the (+) strand and if swapped, the region falls outside of the chromosome length for hg19 chr12. Perhaps this was just an example, not one of your actual positions. Format help is on the region form above, but here are a few more links in case you need to transform your data. When reviewing, be sure to note the difference in the coordinate system used between positional and BED format and how positions on the (-) strand are formatted. http://genome.ucsc.edu/FAQ/FAQformat.html#format1 http://genomewiki.ucsc.edu/index.php/Coordinate_Transforms We hope this helps, Jennifer --------------------------------- Jennifer Jackson UCSC Genome Bioinformatics Group http://genome.ucsc.edu/ On 2/9/10 7:21 AM, Mustapha Amyere wrote: > Hi every body, > I am looking for the way how to download symbol gene list (500 genes) > from UCSC genome browser: for example (chr12:414847200-111000475) > Thank you for your help, > Best Regards, > > Amyere. > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
