Figure 1

Identification of the FOXM1 cistrome in oesophageal-derived OE33 cells. (A) The genomic distribution of the 517 FOXM1 DNA binding regions found in two independent ChIP-seq experiments in OE33 cells (left panel) compared to the background distribution of the same genomic features across the whole genome (right panel). The core promoter corresponds to the 5′ untranslated region (UTR) and DNA sequences 1 kb upstream of the TSS. (B) The top 13 enriched GO terms for biological processes identified in the genes associated with the 517 FOXM1 binding regions are shown. Terms are sorted by -log₁₀ P-value. (C) Heatmaps of the tag density profiles around the peaks identified only in OE33 cells (top panel) or U2OS cells (bottom panel) or in both OE33 and U2OS cells (middle panel) in the OE33 (1,716 peaks; blue) and U2OS (206 peaks; red) ‘combined reads’ datasets. 5 kb upstream and 5 kb downstream of the peak summit (indicated by the arrow) are plotted. (D) Screenshots from the UCSC browser showing examples of FOXM1 binding peaks for the indicated genes. Examples of OE33-specific and OE33/U2OS shared binding peaks are shown. (E) ChIP-qPCR validation of FOXM1 binding to loci associated with the indicated genes in OE33 (red bars) and U2OS (blue bars) cells. PLK1 distal is a negative control region not bound by FOXM1. Data are shown as means ± SD (n ≥ 3).