[BioC] Help with promoter analysis

[Alex Gutteridge]

On 27.02.2012 14:14, Davy wrote:
> Thanks Alex and Yuan,
> One last question though.
>
> Is biomart capable of downloading the promoter sequences of every 
> gene in
> the genome, and would searching all those sequences not be very 
> expensive
> in terms of memory?
>
> Cheers,
> Davy

I don't know if memory would be prohibitive or not. If it is then the 
usual approach in these cases is to do it chromosome by chromosome (or 
any other convenient division). All you need at the end is the number of 
genes hit so there's no need to have everything in memory at once.

-- 
Alex Gutteridge