Deviation from Hardy Weinberg equilibrium
Hi,
I have a set of 10 genes, each gene contains around 15 SNPs. I have tested the deviation from Hardy Weinberg equilibrium (HWE) for all SNPs. All of the SNPs didn't deviate from HWE, except 5 SNPs in ABCG8, they had p<0.05. I have found different factors that can affect the HWE. My question: Why for the rest of the SNPs met the HWE, why only 5 SNPs in ABCG8 deviate largely from HWE?
Thank you in advance, Fatma
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Maybe you find better answers in Biology Stack Exchange since this is not a bioinformatics thread! But I would first check for the sample size. Does it have enough power to detect differences for all SNPs?