Figure 5. E2 upregulated gene promoters are enriched in physical interactions that can mediate their transcriptional response to estrogen.

(A) The plot displays the genomic distances among E2 responsive genes or randomly selected control genes that match in the number of genes. Upregulated genes and matching control genes are shown in purple; downregulated genes and matching controls are shown in yellow. (B) Bar plot shows the percentage of E2 regulated or randomly selected (control) gene pairs within 150 kb that have Promoter–promoter interactions (left, control genes; middle, downregulated genes; right, upregulated genes) observed under DMSO (green) or E2 (blue) treatment conditions. (C, left) Genome browser tracks of ALPP-ALPPL2-ALPI gene cluster displaying Promoter–promoter interactions and ER ChIP-seq signal. (C, right) Relative expression with DMSO (green) or E2 (orange) treatment of each gene when the genes’ promoters in the cluster are targeted by Enhancer-i is displayed. Error bars represent the SD; ****p < 0.00001, ***p < 0.001, **p < 0.01 and *p < 0.05, unpaired t-test, while ns depicts statistical insignificance.