Dear Jennifer, We have a list of SNPs with genomic co-ordinates (both from ncbi, celera & ref assemblies) that we would like to get corresponding gene annotations for. We don't have the flanking sequence, gene name, ID, gene length, CDS or any other information. Currently, we are using build hg18 (ncbi 36.1). What file should we search against to look for gene annotations? We understand the genomic co-ordinates do change with different build numbers and hence we would like to search in build 18 only. When we searched against the genomic regions between column 5&6 in the the refflat.txt file, for certain SNPs (especially those from celera & ref assemblies) don't match to anything in the refflat.txt file. Any suggestions would be useful.
Thank you. Rakhi _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
