Fig. 1

ERα cistrome changes upon tumorigenesis. a Schematic workflow of the multi-omics approach applied in this work. Boxplot depicting the distribution of peak number detected by ERα (b) or H3K27ac (c) ChIP-seq in healthy (blue) or tumor (orange) endometrial tissues. d Venn diagram of the overlap between consensus ERα binding sites detected in healthy (blue) and tumor (orange) tissues. Consensus peaks of each group have been defined as peaks present in at least 75% of the samples belonging to that specific group. e MA plot of differential binding analyses performed on the consensus ERα ChIP-seq peaks (healthy vs tumor). Differential binding sites (FDR ≤ 0.05 and |log₂(FoldChange)| ≥ 1) are highlighted in pink. Tornado plot of the ERα (f) or H3K27ac (g) ChIP-seq signal at tumor-depleted (blue, upper blocks) or tumor-enriched (orange, lower blocks) ERα consensus peaks for all the 4 healthy (blue, left heatmaps) and 5 tumor (orange, right heatmaps) endometrial tissues. On the top of each heatmap is plotted the average density signal for each region group. h Stacked bar plot depicting the genomic localization frequency of tumor-depleted and tumor-enriched ERα ChIP-seq consensus peaks. i Stacked bar plot displaying the distance to associated gene TSS frequency distribution of tumor-depleted and tumor-enriched ERα ChIP-seq consensus peaks. j Wordcloud of the top-50 enriched motifs at tumor-depleted (blues) and tumor-enriched (oranges) ERα consensus peaks. Size and color intensity are proportional to the −log₁₀(E-value). k The upper part of the heatmap shows the individual tumor-depleted (blues) and tumor-enriched (oranges) ERα consensus peaks colored by signal intensity. On the lower part, each black bar represents an overlapping peak of ChIP-seq data of several targets publicly available for the Ishikawa endometrial cancer cell line. l Heatmap of the percentage of tumor-depleted or tumor-enriched ERα consensus peaks overlapping with each ChIP-seq target in Ishikawa cells from (k). Ranking is performed by descending number of overlaps in tumor-depleted peaks