Figure 3

TFBS-landscape views inform of motif enrichment and are diverse in shape and density. A TFBS-landscape view consists of a plot (left) showing the location of the top scoring motif relative to the peakMax (x = 0) on the x-axis and the motif score on the y-axis; the right plot presents a 2 bp resolution density of motif distances to the peakMax (black) and 5 bp resolution for motifs with a motif score equal to or greater than 85 (green). All plots display some degree of enrichment at the peakMax and a lower limit on motif score enrichment. (a) C/EBPB motifs in a C/EBPB ChIP-Seq dataset. (b) C-MYC motifs are enriched at the peakMax of the C-MYC ChIP-Seq dataset, but many top-scoring motifs are randomly dispersed. (c) NFYA motifs in a NFYA ChIP-Seq dataset exhibit enrichment around the peakMax, with high scoring motifs distinct from the majority of scores in the background regions (d) ZNF143 motifs in a ZNF143 ChIP-Seq dataset have low enrichment but some high scoring motifs are distinct from the background. (e) and (f) present JUN motif enrichment in two JUN datasets from different cell types with distinct background motif densities. (g) The REST motif is strongly enriched in a REST ChIP-Seq dataset across a large motif score range at the peakMax with a low density of background motifs. (h) MYOD motif enrichment at the peakMax of MYOD ChIP-Seq data. (i) HNF4A motif enriched proximal to the peakMax of HNF4A ChIP-Seq data. (j), (k) and (l) present motif enrichment for a TF that was not the ChIP’d target: (j) CTCF motifs are slightly enriched offset from the peakMax of H3k4me3 ChIP-Seq. (k) CTCF motifs are enriched offset from the peakMax in RAD21::cohesin ChIP-Seq data. (l) ELK4 motifs in a NELFE ChIP-Seq dataset show an enrichment offset from the peakMax.