[ensembl-dev] variation API mouse phenotype question

[nconte at ebi.ac.uk]

Dear Fiona,
thanks for your answer. About future plans, do you know already when you
plan to release mouse phenotypic data  and what kind of data will it be?
thanks
Nathalie

> Dear Natalie,
>
> At present we do not have phenotype data for mouse, stored in Ensembl.
> This is something that we will look into in the future. There is data
> for human and farm animals.
>
> Best wishes,
>
> Fiona
>
> -----------------------------------------------------------------------------------
> Fiona Cunningham
> Ensembl Coordinator, Ensembl Variation Project Leader.
> EMBL-EBI, Genome Campus, Hinxton, UK
> www.ensembl.org || www.lrg-sequence.org
> fiona at ebi.ac.uk   || t: +44 1223 494612
>
>
> On 19 June 2013 10:41,  <nconte at ebi.ac.uk> wrote:
>>> General question,
>>>
>>>  I have used the fetch by all variation method on my mouse variations
>>> with
>>> the phenotype feature adaptor to retrieve data from mouse variation
>>> objects and didn't retrieve any phenotype feature so far.(I use the
>>> same
>>> method for human variation and it retrieve pheno data).
>>> This is what I use to fetch phenotype data for Mouse using variation
>>> objects:
>>>
>>> my $mpf_adaptor = Bio::EnsEMBL::Registry->get_adaptor('mouse',
>>> 'variation', 'phenotypefeature');
>>> my $pfh = $mpf_adaptor->fetch_all_by_Variation($var);
>>> ... then print annotation about these $pfh..
>>>
>>>
>>> So I was wondering what kind of Mouse phenotype data can be accessed in
>>> variation API using phenotype feature object?
>>>  Is there phenotypic information from SNP, copy number variation, if
>>> yes
>>> coming form what source??thanks
>>> Nathalie
>>>
>>>
>>
>>
>>
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