Hi Xiaohong, You can download the data of the BAC End Pairs track from our download server (http://hgdownload.cse.ucsc.edu/goldenPath/hg19/database/):
bacEndPairs.sql (the MySQL commands used to create the tables) bacEndPairs.txt.gz (the database tables in a tab-delimited format compressed with gzip.) I believe this will have all the data you are looking for. If you are going to be doing a lot of blatting, you can download our blat executable (http://genome.ucsc.edu/FAQ/FAQblat.html#blat3) and use the perl script here which has a built in delay (so as not to overload our servers): http://genomewiki.ucsc.edu/index.php/Blat_Scripts Please don't hesitate to contact the mail list again if you have any further questions. Katrina Learned UCSC Genome Bioinformatics Group Xiaohong ZHANG wrote, On 12/16/2010 7:23 AM: > Hello, > > > > I am doing a project which required the information of BAC > > clones. As we do the blat search in UCSC web, the browser will show > > those overlapped BACs. Since we have hundreds of queries, it is not > > feasible to do one at one time. Do you know how to get the genomic > > coordinates of ends for all BACs that the server is using? I assume > > that data is somewhere there so that the server does the mapping between the > > blat result and all BAC ends. I appreciate your help and it is > > extremely important job for us. > > > > > Kind Regards, > > Xiaohong Zhang, Ph.D > Scientist > Firmenich Inc. (Firriver) > work: 646-439-1704 > cell: 646-413-9525 > > > ********************************************************************** > DISCLAIMER > This email and any files transmitted with it, including replies and forwarded > copies (which may contain alterations) subsequently transmitted from > Firmenich, are confidential and solely for the use of the intended recipient. > The contents do not represent the opinion of Firmenich except to the extent > that it relates to their official business. > ********************************************************************** > > _______________________________________________ > Genome maillist [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
