[ensembl-dev] External_name

[Magali]

Hi Ed,

The name is known as the gene's display_xref, which is a DBEntry object.

The following call $gene->display_xref->display_id should display the
name like on the web page.


Hope that helps,
Magali

On 01/08/13 01:41, Ed wrote:
> Hi Magali,
>
> Thank you for responding, you are very helpful.  I appreciate it and I
> understand.  But I remain confused about the specific algorithm, field or
> function call to make to get the 'name' displayed to the left of the ensembl
> stable id on the web page.
>
> When using the Ensembl API to reconstruct the 'name' displayed to the left
> of the ensembl stable id on the web page for a gene, what algorithm should I
> use?  
>
> Is it simply gene->external_name or something a bit more complicated?
>
> Ed
>
>
> -----Original Message-----
> From: Magali [mailto:mr6 at ebi.ac.uk] 
> Sent: Wednesday, July 31, 2013 4:23 AM
> To: Ensembl developers list
> Cc: Ed
> Subject: Re: [ensembl-dev] External_name
>
> Hi Ed,
>
> For ensembl objects (Gene, Transcript, Translation), we have external
> references which are mappings from our models to external sources like
> Uniprot or HGNC.
> These can be seen under the 'External references' tab on the gene and
> transcript pages.
>
> For each object, if we have a trusted external reference, we also use this
> as a display name.
> Trusted sources are HGNC, MGI, RGD, ZFIN_ID, Uniprot gene name, EntrezGene,
> RFAM and miRBase.
> This is the name which you will see on the left of the ensembl stable id.
>
> For our major species, there should always be a display name, but for some
> species with less data, we can not always assign a name.
> In those cases, you will only see the stable id.
>
>
> Hope that helps,
> Magali
>
> On 30/07/13 20:41, Ed wrote:
>> Hi Developers!
>>
>> I am trying to get the text that is often used to the left of the 
>> ENSEMBL name of a gene in a Gene Pane of the application.
>>
>> For instance, for ENSSSCG00000030483 the characters CTDSPL2 are displayed.
>> Is this always the external_name of a Gene or are there cases where it 
>> is not?
>>
>> Ed
>>
>>
>>
>>
>>
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>
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