Fig. 1: Design of temporal multi-omics dataset and construction of a bioinformatic framework.
From: Decoding the epigenetics and chromatin loop dynamics of androgen receptor-mediated transcription
A Schematic representation of the experimental design. LNCaP cells were treated with 10 nM DHT and samples were collected at five different time points (0 m, 30 m, 4 h, 16 h, 72 h) for RNA-seq, ATAC-seq, ChIP-seq (AR, FOXA1, H3K27ac, H3K4me3), HiChIP (H3K27ac, H3K4me3), and Start-seq. B Venn diagram representing significantly called chromatin loops from merged H3K27ac and H3K4me3 HiChIP datasets. C Arc plots representing percentages of promoter-promoter (P-P), enhancer/CRE-promoter (E-P), and enhancer/CRE-enhancer/CRE (E-E) loops for H3K27ac and H3K4me3 HiChIP. D Graphical representation of a regulatory network. E Gene expression profile of androgen response hallmark genes (P + AR; red), highly expressed (first quartile; P-AR; black) and mid-high (second quartile; P-AR; gray) expressed genes at all time points. The solid line represents the mean, and the error bars indicate the 95% confidence.
