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Question: What does a allele frequency difference between 2 populations mean ?
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gravatar for dxf5729
5.7 years ago by
dxf5729 • 0
China
dxf5729 • 0 wrote:

Hi, I have calculated the top 10 SNPs of their allele frequency differences between two populations  (using 1000 genomes vcf data), but I am confused to draw a conclusion. What does a allele frequency difference between 2 populations mean ? Geographical Drift? What else info can I get from the data?
allele frequency difference snp • 3.3k views
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modified 3.6 years ago by Biostar ♦♦ 20 • written 5.7 years ago by dxf5729 • 0
2

time for some reading: http://www.amazon.com/Population-Genetics-A-Concise-Guide/dp/0801880092

ADD REPLY • link written 5.7 years ago by Zev.Kronenberg ♦ 11k
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gravatar for Jautis
5.7 years ago by
Jautis • 290
United States
Jautis • 290 wrote:

By itself, differences in allele frequency mean very little. You can get different allele frequencies from any number of biological processes including drift and selection so it's hard to say what it means. You'll have to combine it with other data to ask any meaningful question. 

 

You may consider inverting your design. Think about the biological question you want to answer first, then what data is suited to addressing that question rather than trying to figure out what you can ask from rather general data. 
ADD COMMENT • link written 5.7 years ago by Jautis • 290
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