Illustration of our approach for prediction of local TFBS enrichment. (A). For 159 mouse genes with high expression in small and large intestine we show the local enrichment scores in the region -500 to +500 around the TSS for 5 TFBS motifs. The h/2 values were 10 bps for TATA and RXR/RAR/VDR; 20 bps for HNF1; 50 bps for HNF4; and 200 bps for bHLH. (B) The expected local enrichment scores for the same motifs based on the genome-wide set of promoter sequences. h/2 values are as in (A). (C) log10(Pdep) values for the local enrichment scores for the same 5 motifs in the same set of promoters. (D). Visual representation of the locally enriched regions for the 5 motifs. Boxes represent bases with significant scores and lines at both sides represent the h/2 values used. Enriched regions correspond to the regions covered by the boxes and lines.
Vandenbon et al. BMC Bioinformatics 2013 14:26 doi:10.1186/1471-2105-14-26