Feedback circuits identify key modules regulating differentiation. (A) The average profiles (upper panel) of the six clusters are consistent with the differentiation stages and regulatory functions, as indicated with the smoothed intensity of relevant markers (lower panel). Cortical layers (Takahashi et al. 1995a,b) can be approximately separated into four zones, the CP, IMZ, SVZ, and VZ, as indicated in the middle. (NSCs) Neural stem cells, (NPCs) neural progenitor cells, (NRPs) neuron-restricted progenitors. (B) The second largest subnetwork is enriched for regulators of neurogenesis. In this subnetwork, 22 of the 23 nodes have at least three PubMed co-citations (CI ≥ 2) with the word “differentiation.” (C) The largest subnetwork is related to mitotic spindle. In panels B and C, edge colors indicate PCC as in Figure 4A. Node colors denote the expression clusters as shown in Figure 3. TRANSFAC TFs are labeled with a black border. Node radius is proportional to CI with “differentiation.”
