[Genome] Evolutionary conservation question

[Kayla Smith]

Hello Sunita,

You may be interested in looking at our Conservation track.   In the 
hg18 browser, the track controls for the Conservation track are found in 
the Comparative Genomics subsection (though the track is on by default). 
  To learn more about this track, click on the blue or gray bar on the 
left hand side of the track, or click here:

http://genome.ucsc.edu/cgi-bin/hgTrackUi?c=chrX&g=multiz28way

Our data can be downloaded here:
http://hgdownload.cse.ucsc.edu/goldenPath/hg18/phastCons28way/

You may also find that searching our archives for previously answered 
mailing list questions is helpful if you are just getting started 
learning about conservation.  They can be searched here:
http://genome.ucsc.edu/contacts.html

I hope this helps to get you started.  Please don't hesitate to contact 
us again if you require further assistance.

Kayla Smith
UCSC Genome Bioinformatics Group

Sunita Agarwal wrote:
> Hello:
> I am using the UCSC genome browser to find out the evolutionary 
> conservation across species of amino acids effected by missense 
> mutation in my gene of interest.
> How can I state in a manuscript the statistical significance of finding 
> conservation across species (e.g., an amino acid residue "N" is an "N" 
> in all 8 species, or in 6 out of 8 species - "N" in Human, Chimp, Dog, 
> Cat, Mouse, and Rat, but not "N" in Chicken and Zebrafish)? Are there 
> any tools available online to compute such statistics? or is it 
> irrelevant to compute such statistics for evolutionary conservation of 
> amino acid residues?
> Thanks,
> Sunita.
> 
> _______________________________________________
> Genome maillist  -  Genome at soe.ucsc.edu
> http://www.soe.ucsc.edu/mailman/listinfo/genome