[ensembl-dev] [Ensembl #791073] Mix of Ovis aries strains

[Jorge Batista da Rocha]

Hi Sébastien, 

Regarding the sheep reference - the reference sheep in Ensembl is Rambouillet, but to note, we are displaying data for ARS-UI_Ramb_v2.0, the previous version as compared to the refseq reference.

https://www.ensembl.org/Ovis_aries_rambouillet/Info/Index

We’re still looking into the sheep FTP files, hope to get back to you soon. 

Cheers! 
Jorge

Dr Jorge Batista da Rocha
Ensembl Outreach Project Leader
European Bioinformatics Institute (EMBL-EBI)

> On 6 Feb 2025, at 13:23, Sebastien Moretti <sebastien.moretti at unil.ch> wrote:
> 
> Thanks, waiting for your answer about the FTP.
> 
> Does it mean the reference breed is Texel, and not Rambouillet, at Ensembl?
> The reference at RefSeq is now Rambouillet ARS-UI_Ramb_v3.0/GCF_016772045.2
> https://www.ncbi.nlm.nih.gov/datasets/genome/?taxon=9940
> 
> Best
> Sébastien
> 
> On 06.02.2025 10:30, Jorge Batista da Rocha via RT wrote:
>> <URL: http://helpdesk.ebi.ac.uk/Ticket/Display.html?id=791073 >
>> Dear Sébastien,
>> Hope you are well! There have been some issues with the 113 release related
>> files due to sheep texel getting switched up with ramboulliet when pipelines
>> called for sheep - ovis aries.
>> We know this affects VEP for sheep, we have a known bug for this- https://
>> www.ensembl.info/known-bugs/ensembl-113/
>> We are exploring the data on FTP and will get back to you, but until then, the
>> workaround will be to use the files from the 112 release. https://
>> ftp.ensembl.org/pub/release-112/json/ovis_aries/
>> Thanks and best regards
>> Jorge
>>> Sébastien
> 
> --
> Sébastien Moretti
> Staff Scientist
> Department of Ecology and Evolution,
> Biophore, University of Lausanne,
> CH-1015 Lausanne, Switzerland
> Tel.: +41 (21) 692 4221
> https://bioinfo.unil.ch/ https://www.bgee.org/ https://selectome.org/
> 
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