Transcription factor expression and motif enrichment. (A) Digital gene expression (DGE) data for the top 10 monocyte subset-specific transcription factor genes. (B) Combined STRING-based network (confidence view) of the top transcription factors predicted to have the strongest regulatory input in either subset. Coloring of nodes indicates the presence of the transcription factor in the top list of the respective monocyte subset. (C) Enrichment of motifs that were de novo generated from subset-specific CAGE clusters as well as regions showing subset-specific H3K4me1 or H3K27ac deposition as outlined in supplemental Methods. P values for motif enrichment were calculated using the hypergeometric test relative to the distribution in a random, GC-normalized background set. Data are presented as a heatmap (log10 scaled), where red coloring indicates significant motif enrichment in the given sets of subset-specific regions. Numbers in boxes represent relative changes in motif enrichment. De novo–derived motifs were compared with known motifs, and the best-matching motif families are given on the right. The total number of regions per set is given below each heatmap column. For H3K4me1, only promoter-distal regions (d) were considered.
