ARS-UCD, UMD and Btau reference SNP map files
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3 months ago
PeterKW ▴ 40

Hi everyone,

I would like to download the current Bos taurus reference map files from the ARS-UCD, UMD and Btau assemblies with the reference SNP numbers, chromosome and position. I have tried to search on the NCBI website (https://www.ncbi.nlm.nih.gov/assembly/organism/9913/latest/) but I can't locate the information. I will greatly appreciate a link to this information.

Thanks, Peter

Cattle rs position chromosome • 425 views
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Ensembl has VCF for B. taurus available in this folder.

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Thanks, GenoMax. Is this the ARS-UCD1.2 assembly?

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Correct (ARS-UCD1.2 (GCA_002263795.2)).

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GenoMax thanks a lot.

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Hi Everyone,

I thought I could share this here for those who might be looking for this information. I found this and this useful to access the Bos taurus BTAU and UMD SNP map files, respectively.

In the EMBL-EBI EVA browser, I can only browse one chromosome at a time. Anyone with a solution around this or an alternative database where I can download a full UMD 3.1.1 map file with reference SNPs, chromosomes and SNP positions (at least)?

Thanks.

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