In this study, we are interested in β12, the coefficient for the effect of the interaction between allele type and DNA source that describes the SNP’s alternative allele effect. Rejecting the null hypothesis (β12 = 0) suggests that the two alleles cause differences in RNA expression. Positive values for β12 indicate that the alternative allele increases the expression of the 3’UTR segment (i.e., the alternative allele is at higher frequency in RNA than in the DNA), while negative values suggest the opposite. The false discovery rate (FDR) was calculated according to Benjamini and Hochberg (Benjamini and Hochberg, 1995).
