Cis-regulatory logic between genes and accessible elements. (A) Schematic diagram of four common types of cis-regulatory logic: synchronization, repression, enhancer switching, and early opening. (B–E) Cases of four types of cis-regulatory logic. Chromatin accessibility is presented by blue peaks with color shading. Gene expression is presented by color bars on the right. (B) Synchronization. (C) Repression. (D) Enhancer switching. (E) Early opening. (F) Differential TF binding motif enrichments between synchronization and repression peaks. (G) Early opening events are common. Circle position denotes the stage when gene expression first reaches 50% of its maximum (x-axis) versus the stage when the accessibility of the promoter first reaches 50% of its maximum (y-axis). The circle size indicates the number of genes.
