I am writting this email to inform you about the incorrect annotation of your "enhancer browser" in your genome browser.
As easy as look any of the validated enhancer that USCS shows in genome browser and consulting the outsite information about that enhancer to check that the position is absolutly wrong. Just need to copy the experimentally validated region and run a BLAT to check that the region that genome browser shows does not correspond with the descrived one. One easy example, but all the annotation is wrong: UCSC genome browser: http://genome.ucsc.edu/cgi-bin/hgTracks?insideX=136&revCmplDisp=0&hgsid=173058138&hgt_doJsCommand=&position=chr16%3A84%2C982%2C748-84%2C999%2C968&hgtgroup_user_close=0&hgtgroup_map_close=0&hgtgroup_phenDis_close=1&hgtgroup_genes_close=0&hgtgroup_rna_close=0&hgtgroup_expression_close=0&hgtgroup_regulation_close=0&hgtgroup_compGeno_close=0&hgtgroup_varRep_close=0 Outlink annotation of the enhancer: http://enhancer-test.lbl.gov/cgi-bin/imagedb3.pl?form=presentation&show=1&organism_id=1&experiment_id=element_1 Correct enhancer position shown by BLAT: http://genome.ucsc.edu/cgi-bin/hgTracks?insideX=136&revCmplDisp=0&hgsid=173058354&hgt_doJsCommand=&hgt.out3=10x&position=chr16%3A86430087-86430726&hgtgroup_user_close=0&hgtgroup_map_close=0&hgtgroup_phenDis_close=1&hgtgroup_genes_close=0&hgtgroup_rna_close=0&hgtgroup_expression_close=0&hgtgroup_regulation_close=0&hgtgroup_compGeno_close=0&hgtgroup_varRep_close=0 I hope it can help you to solve your problems, Santi. -- Santiago Gonzalez RosadoJUNIOR RESEARCHER Life Sciences - Computational Genomics Barcelona Supercomputing Center (BSC) Centro Nacional de Supercomputacion (CNS) Nexus II - Planta 1 C/ JORDI GIRONA, 29, 08034 Barcelona WARNING / LEGAL TEXT: This message is intended only for the use of the individual or entity to which it is addressed and may contain information which is privileged, confidential, proprietary, or exempt from disclosure under applicable law. If you are not the intended recipient or the person responsible for delivering the message to the intended recipient, you are strictly prohibited from disclosing, distributing, copying, or in any way using this message. If you have received this communication in error, please notify the sender and destroy and delete any copies you may have received. http://www.bsc.es/disclaimer.htm _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
