[ensembl-dev] [SPAM] - Re: Quick question RE exons and regulatory regions - Email found in subject

[Daniel Sobral]

~2kb up and down the gene start is commonly used for Human proximal 
regulatory regions.
As a broader region, you could use ~2kb around the whole gene.

Daniel

On 03/05/2011 13:02, Oliver, Gavin wrote:
>
> Thanks for this!
>
> Is there any sort of distance that is recommended/has been previously 
> utilized for such purposes?
>
> Best,
>
> Gavin
>
> ------------------------------------------------------------------------
>
> *From:*Daniel Sobral [mailto:sobral at ebi.ac.uk]
> *Sent:* 03 May 2011 12:56
> *To:* Oliver, Gavin; dev ensembl
> *Subject:* [SPAM] - Re: [ensembl-dev] Quick question RE exons and 
> regulatory regions - Email found in subject
>
> At the moment, we cannot associate a regulatory region to a specific gene.
> What you can do is get all regulatory regions around a certain 
> distance of the gene.
>
> Hope that helps,
> Daniel
>
> On 03/05/2011 12:22, Oliver, Gavin wrote:
>
> Hi all,
>
> Just wondering -- using the relevant APIs is it possible to take a 
> list of genes, extract all associated exon coordinates and also the 
> coordinates of associated regulatory regions?
>
> I know the exon bit is ok, but it's the associated regulatory regions 
> I've never looked at before...
>
> Cheers,
>
> Gavin
>
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