HiNO: An Approach for Inferring Hierarchical Organization from Regulatory Networks
Figure 5
From the gene regulatory network (GRN) to the hierarchical structure.
Illustration of (A) the GRN of E. coli with 1095 nodes and 2044 edges and (D) the GRN of S. cerevisiae with 3458 nodes and 8371 edges. Red nodes indicate transcription factors, green nodes genes. For extracting the hierarchical structure we deduced transcriptional regulation only. The transcriptional regulatory networks (TRNs) are shown in (B) for E. coli and (E) S. cerevisiae only. A snapshot of the hierarchical structure of the TRNs is shown for E. coli in (C) and for S. cerevisiae in (F). The TRN of E. coli has a four-layered pyramidal-shaped hierarchical structure, whereas the TRN of S. cerevisiae consists only of three layers. The different colors represent the distinct hierarchical levels: level 4– yellow; level 3– red; level 2– green; level 1– blue.