Allelic-Specific Expression (ASE) Analysis for Two Targets, SSBP4 and ZNF404
(A and B) At the top of each panel, the exonic SNP rs10405636 (in LD with lead SNP rs7258465) and rs12977303 (in LD with rs1685191) were selected as surrogates for SSBP4 and ZNF404, respectively. The allele associated with higher expression is indicated by a black arrow based on the ASE analysis. Number of RNA-seq (blue) and exome-seq (red) mapped reads (log2 scale) containing alternative and reference alleles of (A) rs10405636 in SSBP4 and (B) rs12977303 in ZNF404 are plotted across tumor samples.
(C and D) Density plots indicate the fraction of expressed C allele relative to expression of both alleles of rs10405636 and A allele relative to expression f both alleles of rs12977303.