Dear colleague, I downloaded human RefSeq genomic coordinates using the Table Browser tool in order to identify bidirectional promoters. I checked some gene pairs known to be in head-to-head configuration (less than 1000 bp apart). Strangely a significant difference (~15-29 kb) was observed for these pairs according to my calculations, which were basically finding genes in the same chromosome and in opposite strands and having TSSs less than 1000 bp apart, without overlapping.
In fact, the Genome Browser showed these genes as regulated by bidirectional promoters (head-to-head orientation), while the genomic coordinates didn't. I attached somes slides depicting some of these flaws. Am I doing something wrong? I appreciate your help. Cheers, Glauber ---------------------------------------------- Glauber C. Brito, PhD Centro de Investigação Translacional em Oncologia Instituto do Câncer do Estado de São Paulo Faculdade de Medicina da Universidade de São Paulo Av. Dr. Arnaldo, 251. Cerqueira César CEP 01246-000 - São Paulo - SP - Brasil Tel: + 55 11 38933007 _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
