Re: about a question on Breakseq

[Hugo Lam]

Dear Chen-Pang,

Thanks for your email.

For the inter-chromosomal relocation predicted by the insertion trace
method described in our manuscript, you can get a copy of it at the
following URL:

http://sv.gersteinlab.org/breakseq/download/breakpoint.traceinter.gff

The "Trace" attribute in the last column of the GFF has the predicted
coordinates, based on NCBI36 (HG18).

Regards,
Hugo


> ---------- Forwarded message ----------
> From: Soong,Chen-Pang (stu) <CSo...@student.uchc.edu>
> Date: Mon, Jul 26, 2010 at 3:38 PM
> Subject: about a question on Breakseq
> To: "mark.g...@yale.edu" <mark.g...@yale.edu>
>
>
> Dear Dr. Gerstein,
>
> I am a graduate student in UConn Health Center interested in your work on
> BreakSeq. I work in Dr. Andrew Arnold's lab and our general interest is
> cancer genetics. I have read the Nature Biotech paper and understand that
> many SVs have been identified by the BreakSeq program. I am especially
> interested in inter-chromosomal SVs however the supplementary info
> associated with the Nature Biotech paper does not seem to include detail
> info those SVs. Is there another database I should look into or could you
> provide me more detail info on the inter-chromosomal SVs? Thank you.
>
> Best regards,
> Chen-Pang
>
>
>