Parallel gene regulatory evolution in liver.

A-B). Correlation between parental differential expression and differential expression between alleles in F1 hybrids for SARAvMANA (A) and EDMAvMANA (B) comparisons. Genes are colored based on regulatory mode (see methods of details). C-D). Effect size as measured as log2 fold change for different regulatory classes in SARAvMANA (C) and EDMAvMANA (D) comparisons. P-values calculated using Welch two sample t-tests. E-F). Expected vs. observed overlap between SARAvMANA and EDMAvMANA cis-regulated (E) and trans-regulated (F) genes. Dashed line indicates observed overlap. Proportion of overlap shown in venn diagrams is significantly higher for cis-regulated genes as compared to trans-regulated genes (Chi-square test of independence, p < 0.0001).