Global and Local Architecture of the Mammalian microRNA–Transcription Factor Regulatory Network
Figure 4
Network Designs in the miR–TF Coregulation Network
The figure depicts the analyzed network motifs in the TargetScan and PicTar dataset, and with the use of TF binding sites in RefSeq genes promoters of 10 kb for both networks, and 5 kb for the PicTar network. The figure depicts, for each network motif, its architecture, the number of times it appears in each of the networks, the p-value and z-score for its over-representation in the network (as described in Materials and Methods), the total number of RefSeq genes that are regulated by this type of network design, and an example.
*For the first design, the coregulating miR–TF pair, we state the range of hypergeometric p-values of pairs that passed FDR and are considered significant, and in brackets the FDR p-value of these pairs using the randomization co-occurrence test.
**In addition, z-scores for significant pairs were calculated based on the co-occurrence edge-swapping randomization model (see Materials and Methods).