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http://www.hyphy.org/cgi-bin/hyphy_forums/YaBB.pl Methodology Questions >> How to >> dN/dS of regulatory regions http://www.hyphy.org/cgi-bin/hyphy_forums/YaBB.pl?num=1277994058 Message started by RyanAmes on Jul 1^st, 2010 at 7:20am

Title: dN/dS of regulatory regions
Post by RyanAmes on Jul 1^st, 2010 at 7:20am

Hi

I'm looking for a method to infer whether nucleotide positions in the 5' UTR of a set of genes are under positive selection. Is there any way this can be done in HyPhy?

Kind regards

Ryan

Title: Re: dN/dS of regulatory regions
Post by Sergei on Jul 1^st, 2010 at 8:49am

Hi Ryan,

Olivier Fedrigo and colleagues have developed a test of selection on promoter regions (using nearby introns as neutral markers) in HyPhy.
The paper describing the approach can be found here Multimedia File Viewing and Clickable Links are available for Registered Members only!! You need to

Title: Re: dN/dS of regulatory regions
Post by RyanAmes on Jul 1^st, 2010 at 9:07am

Thanks for your reply and suggestion.

Ryan