Fig. 5: PDS5A is required for maintenance of ultralong-range Polycomb loops.
From: Loss of cohesin regulator PDS5A reveals repressive role of Polycomb loops
a Loop pileup analysis of non-PcG loops (n = 11,900), PcG loops (PRC1/2 and vPRC1; n = 525) and PRC1/PRC2 loops (PRC1/2 only; n = 476) in wild-type (left) and Pds5a KO (right) ESCs. Number indicates relative peak enrichment. b Loop pileup analysis of Polycomb loops overlapping unchanged/downregulated PRC1/PRC2 target genes (not up PRC1/PRC2 loop; n = 411) and upregulated PRC1/PRC2 target genes (up PRC1/PRC2 loop; n = 65) in wild-type (left) and Pds5a KO (right) ESCs. Number indicates relative peak enrichment. c Meta plots show average RING1B and H3K27me3 cChIP-seq signals at Polycomb loop anchors associated with unchanged/downregulated PRC1/PRC2 target genes (not up PRC1/PRC2 loop; n = 411) and upregulated PRC1/PRC2 target genes (up PRC1/PRC2 loop; n = 65) in wild-type (left) and Pds5a KO (right) ESCs. Red box indicates loop anchor that overlaps upregulated PRC1/PRC2 target genes in Pds5a KO ESCs. d Cumulative distribution of chromatin loop lengths. e Box plot shows number of TADs traversed by different types of chromatin loops in A or B compartments. Shown are median (horizontal line in the middle), 25th to 75th percentiles (at the end of the boxes) and 90% percentiles (whiskers).
