Fwd: Re: cross species CGH Nimblegene arrays
1
0
Entering edit mode
mb23 ▴ 30
@mb23-2787
Last seen 8.0 years ago
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! Marti -- HP pisac uz Iskon.DUO pakete- odaberite paket Obitelj, Surf ili Obitelj+ i dobivate visenamjenski pisac za samo 1 kn! Vise o paketima saznajte na http://www.iskon.hr ili na 0800 1000
CGH CGH • 515 views
ADD COMMENT
0
Entering edit mode
@sean-davis-490
Last seen 3 months ago
United States
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
ADD COMMENT
0
Entering edit mode
Sean Davis wrote: > 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. Or even Biostrings for the mapping...:-) > > Hope that helps. > Sean > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor > -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2-B876 PO Box 19024 Seattle, Washington 98109-1024 206-667-7700 rgentlem at fhcrc.org
ADD REPLY

Login before adding your answer.

Traffic: 481 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6