[BioC] EST´s mapped to a structural variation region

[Sean Davis]

On Friday 15 December 2006 05:43, João Fadista wrote:
> Dear all,
>
> I have made a microarray experiment with some EST´s (expression sequence
> tags) and I would like to see if those EST´s are in a  known region of
> structural variation in the human genome.
>
> So I was wondering if anyone knows if there is any R/BioC package or other
> software where I can input all my EST´s ( their sequence in FASTA format
> or their positions in the genome) and then retrieve an output file with
> those that are mapped to a known region of structural variation.

As far as I know there are no bioconductor packages for doing this.  You may 
want to look at using the UCSC table browser for doing a task like this.  I 
think it will be possible.  You can write to them (there is a link on their 
site) for assistance--they are quite helpful and prompt.

Sean