Dear UCSC team, I'm Guru Ananda from Galaxy team, and I'm forwarding an email from one of our users regarding retrieval of mouse non-coding RNAs and tRNAs. Can you please point him to the right track/table to use on the genome browser?
Thanks, Guru Galaxy team. Begin forwarded message: > From: "Dynlacht, Brian" <[email protected]> > Date: January 27, 2010 5:32:57 PM EST > To: "[email protected]" <[email protected]> > Subject: Retrieving genomic coordinates for non-coding RNAs > > Hello, > Recently, my colleague Yuval Kluger contacted you about retrieving non-coding > RNAs from the UCSC genome browser. We are especially interested in ncRNAs and > tRNAs, etc. > Unfortunately, neither of us could figure out what to do next based on your > email below. I am trying to retrieve genome coordinates from the MOUSE > genome. I'd like to start with tRNAS but eventually get to all know > non-coding RNAs. > Is there any way that you can tell me how to get a direct list of genomic > positions for the mouse genome for this purpose? > Thanks so much. > Brian Dynlacht > Professor > NYU School of Medicine > > > Hi Yuval, > > You should be able to retrieve RNA co-ordinates using the interface to UCSC > genome browser under 'Get data' section on Galaxy. For information on which > tracks and tables to choose, please refer these links which contain answers > to this topic from UCSC mailing list: > http://www.soe.ucsc.edu/pipermail/genome/2007-August/014299.html > http://www.soe.ucsc.edu/pipermail/genome/2007-May/013491.html > http://www.soe.ucsc.edu/pipermail/genome/2006-April/010436.html > > Thanks for using Galaxy, > Guru > Galaxy team. > > > ------------------------------------------------------------ > This email message, including any attachments, is for the sole use of the > intended recipient(s) and may contain information that is proprietary, > confidential, and exempt from disclosure under applicable law. Any > unauthorized review, use, disclosure, or distribution is prohibited. If you > have received this email in error please notify the sender by return email > and delete the original message. Please note, the recipient should check this > email and any attachments for the presence of viruses. The organization > accepts no liability for any damage caused by any virus transmitted by this > email. > ================================= > > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
