Fig. 6

SNPs that are both eQTLs and cQTLs. a Direction of effects of cQTL vs. eQTL. Concordant effects are when cQTL allele associated with greater open chromatin is also associated with higher eQTL expression. b Even though the direction of cQTL and eQTL is largely concordant, the effect sizes of these differences are only modestly correlated (r = 0.21). c Three SNPs in high LD on chromosome 1. The tested allele is associated with lower expression and more open chromatin for all three SNPs. Distance between SNPs 1 and 2 is 10 kb, and distance between SNPs 2 and 3 is 6.3 kb. d Three SNPs in high LD on chromosome 2. The tested allele is associated with lower expression in all three instances, but with more open chromatin for two SNPs and more closed chromatin for the third SNP. Distance between SNPs 1 and 2 is 2 kb and distance between SNPs 2 and 3 is 20 kb