Figure 11

Correlations between DNA motifs in promoters and function (GO terms and mRNA expression properties). In both sections of the figure, promoter lists in blue are DMp, green are DMv, and red are NDM. Control groups with the DNA motifs not in the peak but between -1,000 bp and +499 bp are in black with an asterisk.(a) False-color image of representation bias in GO terms and mRNA expression clusters for the 15 DNA motifs, either in the peak or elsewhere in the promoter region. Values plotted are -log₁₀(p value) calculated by Fisher's exact test. Data for the 54 most strongly correlated GO terms are shown (some redundant GO terms are removed). On the far left are results for over/under representation in self-organizing map (SOM) clusters identified from previously published expression data [20]. Over-represented categories are colored in red and under-represented categories are in blue. N values displayed at the top are total numbers of genes in the reference set assigned to that group. (b) False-color image of hierarchically clustered median percentile ranks of mRNA expression ratios, for previously published data for embryo and adult samples [21]. Each ratio represents expression relative to a global mean across arrays. Columns represent each of 89 array experiments, clustered so that embryo samples are at left and adult samples are at right. 'All Promoters' represents all genes and shows no preferences (median percentile rank = 50).