Fig. 3

Over-represented regulatory motifs in the TRN. A) Two over-represented transcriptional regulatory motifs among the 13 previously reported regulatory motifs. A regulatory structure among two TFs and their targets in each motif is shown (top left). A large positive Z-score indicates significant over-representation of the corresponding motif. Two (Motifs 7 and 10) significantly (P < 0.01) over-represented motifs were denoted by the arrows. B) Regulatory information of the two over-represented motifs, Motifs 7 and 10. The over-representation p-value, the number of the motifs in the TRN, the numbers of TFs and TF pairs in the motifs, and the numbers of EU, LU, and DN targets in the motifs are shown. C) A schematic for identification of key DETF pairs significantly enriched in Motif 7. See text for details. D) Heat map showing prion disease-associated processes significantly targeted by the key DETF pairs. Statistical significance (P-value) was computed with the hypergeometric test and then transformed into Z-score (Materials and Methods), which was displayed in the heat map