Figure 4.
Dynamic Gene Regulatory Network Driving Hematopoietic Specification
For each developmental stage the 16 TFs used in ChIP-seq experiments are shown as nodes in a GRN. The color of each node corresponds to the level of gene expression (see key). The chromatin accessibility at each promoter is shown as open/circular (DHS presence) or closed/octagonal (DHS absence), and the border color of the node corresponds to the promoter state according to the coarse-grain four-state model mentioned in Figure 2 (see key). Arrows indicate binding events of a TF (source) at loci encoding all TFs (target). The arrow color relates to the promoter state of the target TF encoding gene. No emanating arrow from a node indicates absence of ChIP data. For information about which ChIP experiments were conducted in which cell type, see Figure S1B. Note that we did not include C/EBPβ binding in the ES cell GRN, since the publicly available datasets did not contain the respective data.