Extended Data Fig. 7: Structure of a mega-loop body pairing the NLRP3 and SEC14l1 loci into a common hub.
From: Nuclear morphology is shaped by loop-extrusion programs
a, Ten kb resolution (left) and 5 kbp resolution (right) KR-normalized Hi-C contact matrices indicating loop bodies that span Nlrp3 and Sec14l1 loci across chromosome 11 are shown in ECOMG progenitors (-dTAG−13) and NIPBL-depleted cells (+dTAG-13). b, Box plot shows the sum of KR-normalized-interaction frequencies across a gained mega-loop body spanning the Nlrp3 and Sec14l1 loci in ECOMG progenitors (-dTAG) and NIPBL-depleted cells (+dTAG). Two-sided two-sample T-test was performed. P = 1.72 × 10−9. In each box, the upper edge, horizontal centre line and lower edge represent the 75th percentile, median and 25th percentile, respectively. The upper whiskers represent the 75th percentile + 1.5× the IQR. The lower whiskers represent the 25th percentile − 1.5× the IQR. c,d, Genome browser tracks depicting RNA-seq, ChIP–seq and ATAC-seq reads at mega-loop interactions involving the Nlrp3 (c) and Sec14l1 (d) loci in cells cultured with β-oestradiol and in the absence or presence of dTAG-13. Note that ChIP–seq reads were derived from ECOMG cells cultured in the presence of β-oestradiol (Pro) versus absence of β-oestradiol (Neu)24.
