[ensembl-dev] [SPAM] - Re: Transcript variation alleles - Email found in subject

[Will McLaren]

In this case, as Graham says, the alleles will be the genomic alleles, since
you are calling from a variation_feature object.

Will

On 2 February 2011 15:21, Oliver, Gavin <gavin.oliver at almacgroup.com> wrote:

>  I’m using transcriptvariation->variation_feature->allele_string
>
>
>  ------------------------------
>
> *From:* wmclaren at gmail.com [mailto:wmclaren at gmail.com] *On Behalf Of *Will
> McLaren
> *Sent:* 02 February 2011 15:20
> *To:* Graham Ritchie
> *Cc:* Oliver, Gavin; dev at ensembl.org
> *Subject:* [SPAM] - Re: [ensembl-dev] Transcript variation alleles - Email
> found in subject
>
>
>
> Hi Gavin,
>
>
>
> What method and object type are you using to get the alleles? It's not
> clear from your email.
>
>
>
> Thanks
>
>
>
> Will
>
> On 2 February 2011 15:11, Graham Ritchie <grsr at ebi.ac.uk> wrote:
>
> Hi Gavin,
>
> The alleles of a transcript variation always represent the genomic base
> change.
>
> Cheers,
>
> Graham
>
> Ensembl variation
>
>
>
> On 2 Feb 2011, at 15:02, Oliver, Gavin wrote:
>
> > Hi,
> >
> > When I pull transcript variation alleles via the API, does the allele
> shown (e.g. A/T) represent the genomic base change, or the transcriptomic
> one?
> >
> > Gavin
> >
> >
> > The contents of this message and any attachments to it are confidential
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> you should delete it from your system immediately and advise the sender.
> >
> > Almac Group (UK) Limited, registered no. NI061368.  Almac Sciences
> Limited, registered no. NI041550. Almac Discovery Limited, registered no.
> NI046249.  Almac Pharma Services Limited, registered no. NI045055.  Almac
> Clinical Services Limited, registered no. NI041905.  Almac Clinical
> Technologies Limited, registered no. NI061202.  Almac Diagnostics Limited,
> registered no. NI043067.  All preceding companies are registered in Northern
> Ireland with a registered office address of Almac House, 20 Seagoe
> Industrial Estate, Craigavon, BT63 5QD, UK.
> >
> > Almac Sciences (Scotland) Limited, registered in Scotland no. SC154034.
> >
> > Almac Clinical Services LLC, Almac Clinical Technologies LLC, Almac
> Diagnostics LLC, Almac Pharma Services LLC and Almac Sciences LLC are
> Delaware limited liability companies and Almac Group Incorporated is a
> Delaware Corporation.  More information on the Almac Group can be found on
> the Almac website: www.almacgroup.com
>
> > _______________________________________________
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>
> _______________________________________________
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>
>
> *  *
>
> The contents of this message and any attachments to it are confidential and
> may be legally privileged. If you have received this message in error, you
> should delete it from your system immediately and advise the sender.
>
>
>
> Almac Group (UK) Limited, registered no. NI061368.  Almac Sciences
> Limited, registered no. NI041550.  Almac Discovery Limited, registered no.
> NI046249.  Almac Pharma Services Limited, registered no. NI045055.  Almac
> Clinical Services Limited, registered no. NI041905.  Almac Clinical
> Technologies Limited, registered no. NI061202.  Almac Diagnostics Limited,
> registered no. NI043067.  All preceding companies are registered in
> Northern Ireland with a registered office address of Almac House, 20 Seagoe
> Industrial Estate, Craigavon, BT63 5QD, UK.
>
>
>
> Almac Sciences (Scotland) Limited, registered in Scotland no. SC154034.
>
>
>
> Almac Clinical Services LLC, Almac Clinical Technologies LLC, Almac
> Diagnostics LLC, Almac Pharma Services LLC and Almac Sciences LLC are
> Delaware limited liability companies and Almac Group Incorporated is a
> Delaware Corporation.  More information on the Almac Group can be found on
> the Almac website: www.almacgroup.com
>
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