Hello, Have you seen the PCR tool in the Browser?
follow the links to: http://genome.ucsc.edu/ -> left blue nav bar "In Silico PCR" or directly, http://genome.ucsc.edu/cgi-bin/hgPcr Choosing regions will still be your decision, but this tool can help with analyzing the selections under consideration. Here is a link I found that is quite informative with plenty of general PCR design advice, all in one place (ignore the article header, the leading "novice" parts are quickly replaced with hard biology): http://www.squidoo.com/primer-design Other similar results (wiki, etc.) come from a google with the search term "PCR Primer Design", but the one above seems like a good place to start for a re-fresher or to catch up with the latest methods. We hope this helps, Jennifer ------------------------------------------------ Jennifer Jackson UCSC Genome Bioinformatics Group ----- "Indrani Datta" <[email protected]> wrote: > From: "Indrani Datta" <[email protected]> > To: [email protected] > Sent: Friday, January 15, 2010 8:32:39 AM GMT -08:00 US/Canada Pacific > Subject: [Genome] Desinging primers for CpG islands > > Hello, > > Assembly “hg18”, March 2006 > RefSeq Genes > > I am trying to design primers for some specific genes for > methylation. > I know in Table browser for March 2006 , human assembly , > under regulation, I can download the sequences for CpG islands for > specific regions ( specific gene regions). > > But I need some more information how can I related this > sequences for primer design. > > I would really appreciate any information. > > > Thanks in advance, > Indrani > ============================================================================== > CONFIDENTIALITY NOTICE: This email contains information from the > sender that > may be CONFIDENTIAL, LEGALLY PRIVILEGED, PROPRIETARY or otherwise > protected > from disclosure. This email is intended for use only by the person or > entity > to whom it is addressed. If you are not the intended recipient, any > use, > disclosure, copying, distribution, printing, or any action taken in > reliance > on the contents of this email, is strictly prohibited. If you received > this > email in error, please contact the sending party by reply email, > delete the > email from your computer system and shred any paper copies. > > Note to Patients: There are a number of risks you should consider > before using > e-mail to communicate with us. See our Privacy Policy and Henry Ford > My Health > at www.henryford.com for more detailed information. If you do not > believe that > our policy gives you the privacy and security protection you need, do > not send > e-mail or Internet communications to us. > ============================================================================== > > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
