Extended Data Fig. 7: Enhancer-promoter interactions and single cell examples.
From: Visualizing DNA folding and RNA in embryos at single-cell resolution
a, Violin plots showing the distance between each indicated enhancer and its cognate promoter in cells in which nascent transcripts were detected or absent. The average distances are marked by plus symbols. P values from a two-sided KS test between the distributions (PKS) and from a two-sided Wilcoxon test (PW) are shown. The total number of cells, n, in each distribution is indicated. The enhancers from each genetic domain (two from each of the largest domains) are labelled by their classical names. The relative positions of enhancers and promoters are shown below. Note that most cells from the silent state come from anterior regions where the BX-C is repressed and compacted by Polycomb. Despite this compaction of the repressed state and relative decompaction of the active state, all enhancer–promoter pairs are on average slightly closer when active. A more substantial difference may be expected for domains in which the silent state is not largely attributable to Polycomb activity. b, Two example distance maps from single cells for each embryonic segment as indicated. Population-average normalized maps as in Fig. 4 are shown below for comparison.
