Extended Data Fig. 8: Enhancer-promoter interactions at loci of oncogenic transcription factors with AU-15330.
From: Targeting SWI/SNF ATPases in enhancer-addicted prostate cancer
(a) ATAC-seq and ChIP-seq tracks for AR, FOXA1, and H3K27Ac within the AR gene locus in VCaP cells with or without AU-15330 treatment (1 μM for 6h for AR and FOXA1; 1 μM for 24h for H3K27Ac). (b) H3K27Ac HiChIP-seq heatmaps within the FOXA1 gene locus in VCaP cells plus/minus treatment with AU-15330 (1 μM) for 4h (bin size = 25Kb). ATAC-seq read-density tracks from the same treatment conditions are overlaid. Grey highlights mark enhancers, while the blue highlight marks the FOXA1 promoter. (c) Aggregate peak analysis (APA) plots for H3K4me3 (active promoter mark) HiChIP-seq data for all possible interactions between putative enhancers and gene promoters in VCaP cells plus/minus treatment with AU-15330 (1 μM) for noted durations. (d) APA plots for CTCF HiChIP-seq data for all possible interactions between CTCF-bound insulator elements in VCaP cells plus/minus treatment with AU-15330 (1 μM, 4h). TAD, topologically associating ___domain. (e) CTCF HiChIP-seq heatmaps in a gene locus at Chr14, including the FOXA1 topologically associating ___domain (TAD), in VCaP cells plus/minus treatment with AU-15330 (1 μM) for 4h (bin size = 100Kb). CTCF ChIP-seq read-density tracks from VCaP cells plus/minus AU-15330 treatment (1 μM) for 6h are overlaid.
