Fig. 5

FOXA1 binding in AEC is associated with TF networks in an AEC cell-type specific manner. A) HOMER-computed TFBS enrichment for Associated Motifs surrounding the FOXA1 predicted binding motifs in AT1-like (x axis) and AT2 (y axis) cell-specific enhancers. Dotted line indicates threshold for statistical significance. B) Predicted binding site distance of the several statistically significantly enriched TFBS motifs from center of FOXA1 binding motif for AT2-cell enhancers. Zero position is the center of the FOXA1 predicted binding site. Y axis = density of predicted Associated Motif(s) at indicated bp distance from center of FOXA1 motif. C) Predicted binding site distances of the indicated TFBS motifs from center of FOXA1 Interrogated Motif for the AT1-like cell enhancers. D) Distribution of FOXA1 and NKX2–1 occupancy of A549 enhancers that are also present in AT2 cells, AT1-like cells, or are specific to the cancer phenotype. E-G) ChIP-seq of FOXA1 and NKX2–1 in A549 lung cancer cells. Tag density of ChIP-seq reads plotted relative to the center of the enhancer peak. Tag densities between ChIP-seq runs are normalized per millions mapped. E) A549 enhancer peaks that had > 50% overlap with AT2 cell enhancer regions, F) A549 enhancer peaks that had > 50% overlap with AT1-like enhancer regions, G) A549 enhancers without overlap to AEC enhancers