Fig. 4: Temporal changes of nascent RNA.
From: Decoding the epigenetics and chromatin loop dynamics of androgen receptor-mediated transcription
A Clustering of nascent capped mRNA (Start-seq) according to time-dependent maximum expression. The union of upregulated transcripts’ nascent expression level across all time points were z-score normalized. B TMM normalized ChIP-seq or ATAC-seq of the following regulatory elements: AR-bound enhancers (E + AR: yellow) and AR-free enhancers (E-AR: gray). Each row represents the enhancers that loop to those genes that are maximally expressed at that time point (see A). C Fold change in contact frequency of AR-bound enhancers looping to maximally expressed genes for H3K27ac (E + AR; blue) and H3K4me3 (E + AR; green) HiChIP. These CREs were compared to AR-free enhancers of highly expressed genes (E-ARi; black) in both HiChIP datasets. For all line plots (B, C), the solid line represents the mean, and the error bars indicate the 95% confidence.
