Figure 3

Combined expression and motif prediction analysis. (A) The method used to identify conserved transcription factor binding sites (TFBSs) is shown. (B) The identification numbers and the logos of three different Sox9 binding site matrices from TRANSFAC are given. (C) A heatmap is shown for genes for which mRNAs are detected only in mutant testicular samples (up) in comparison to purified testicular cells and external controls as in Figure 3. (D) A heatmap for genes showing weaker signals in the mutant (down) and above-background signals in purified Sertoli cells. The proximal promoters of the genes shown in panels C and D contain at least one predicted Sox9 binding site. A log2 scale is given. (E) Transcription factor symbols and their corresponding binding matrix identifiers (left), the total number of promoter sequences that contain them (middle), and the numbers of promoters observed versus expected by chance for genes falling into increase and decrease groups shown in panel A (right) are given. The total numbers in each category is given at the top of the columns. A color scale showing depletion and enrichment is shown at the bottom. Regulators for which we detect stronger or weaker signals in the mutant are given in red and blue, respectively.