Fig. 5: Dynamic expression divergence between mouse sub-species is predominantly caused by differentiation-dependent cis-effects.
From: The dynamic genetic determinants of increased transcriptional divergence in spermatids
a Hierarchical clustering of the temporal profile of transcriptional divergence, identifying 7 distinct clusters. Left: Average of F0 allelic imbalance (expression divergence) across differentiation for four selected clusters where allelic imbalance peaks late in differentiation (see Fig. S11a,b for results from all remaining clusters). Allelic effects are scaled to relative values between zero and one; grouped by hierarchical clustering. Right: Proportion of genes assigned to each cluster. Bottom: Average effect size for all genes with dynamic differential expression across differentiation irrespective of cluster membership. n specifies the number of genes. Trajectories are derived by LOESS-smoothing, shown with 95% confidence intervals. b As (a), for F1 allelic imbalance, i.e. cis-effects. c As (a), for trans-effects. Bottom panel shows positions of cells in different cell types across differentiation. d Proportion of genes with evidence for 1) no dynamic genetic effect, 2) for dynamic cis, 3) dynamic trans, or 4) both types of effects among all genes showing dynamic differential expression between parental strains. (e) Overlap of genes among clusters of dynamic cis and dynamic differential expression.
