[Genome] genome alignment

[Kayla Smith]

Hello Vesko,

Yes, we have chain and net data between human and chimp on our website. 
  To see the chimp chains and nets on human, open the hg18 browser, and 
scroll down to the "Comparative Genomics" section.  You'll see "Chimp 
Chain" and "Chimp Net" which you can turn on.  You can use our Table 
Browser ("Tables" on the blue bar on the top of the main page) to 
extract a subset of this data.  And finally, to download this data in 
it's entirety, click on "Downloads" --> "Human" --> "Human/Chimp 
pairwise alignments" or click here:

http://hgdownload.cse.ucsc.edu/goldenPath/hg18/vsPanTro2/

I hope this information is helpful to you.  Please don't hesitate to 
contact us again if you require further assistance.

Kayla Smith
UCSC Genome Bioinformatics Group



Vesselin Baev wrote:
> Dear All,
> Is there an already done genome-wide human-chimp alignment that I can
> use for extracting portions of it with specified coordinates?
> If not, what should I use to make such alignment and what to use to
> extract regions of it with coordinates (Galaxy or?)?
> 
> Vesko
> 
>