[BioC] Fwd: Re: cross species CGH Nimblegene arrays

[Sean Davis]

On Wed, May 7, 2008 at 6:29 PM, mb23 <mb23 at net.hr> wrote:
>
>  I mean that we wanted to compare CNV between 2 individuals of the same species by putting it on the
>  Danio (zebrafish) CGH array. This fish is according to our previous data quite syntenic to Danio,
>  although the year 100 millions years apart.
>  So I am asking if anybody did something like Human to Chimp hybe, or any other on CGH?
>  thank you!

If you have an assembled genome (or parts of one), then it is pretty
simple to use a program like Blat, gmap, etc. to realign the sequences
on the array to the novel genome.  Then, you can proceed as if the
array contained sequences for the new species.

Hope that helps.
Sean