We are studying neurodegenerative disease using next generation sequencing on Jewish population.
I am looking for control group contain exomes of healthy Jewish samples (especially from Ashkenazi or North Africa origin).
Does anyone knows about such database which available to download? I looked at the ExAC 0.3 cohort, but it's divided into general population such Latino, Non-Finish European, Asian, etc.
Thank you very much,
Omri
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written
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nayshool •
3 answers
Not quite exomes, but the Ashkenazi Genome Consortium.
We have recently released high-depth, whole genome sequence data on our initial sample of 128 healthy individuals from the Ashkenazi population
Their paper http://www.nature.com/ncomms/2014/140909/ncomms5835/full/ncomms5835.html
The VCF file is accessible at the European Genome-phenome Archive, although you need to apply to access the data
Delete this please, see my comment instead.
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written
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Endre Bakken Stovner
You can look at this as well: http://evolbio.ut.ee/khazar/ for Ashkenazi studies and also the Jewish data from the same link.
Hope this helps.
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I am not aware of such data set but maybe you can try and do a PCA analysis to find an available population that is less stratified from your samples? It won't be perfect but should at least give you somewhere to start working on
http://alfred.med.yale.edu/alfred/AboutALFRED.asp has some Jewish pops AFAICR, but there are not 1kg levels of SNPs there, so you would have to rely on linkage in some way.
These are not exomes either, rather SNP frequencies.
Thank you all for your kind help!