Extended Data Fig. 8: Cohesin depletion disrupts CTCF/Cohesin loops, but generally not most microcompartmental loops.
From: Region Capture Micro-C reveals coalescence of enhancers and promoters into nested microcompartments
(a) Contact maps comparing a DMSO control (above) and RAD21-depleted samples (below) are shown for the Klf1, Ppm1g, Sox2, Nanog, and Fbn2 loci at resolutions spanning 800 bp – 5 kb in F1M RAD21-mAID-BFP-V5 mESCs13,38. Arrows mark contacts lost upon RAD21 depletion. ChIP-seq data from Hsieh et al.,13 is shown below the maps before and after the IAA treatment (500 μM, 3 hours). Two versions of the Fbn2 locus are shown, with the left using logarithmic contact frequency scaling and the right using linear scaling. Loss of the Fbn2 loop38 is most clearly seen on linear scale. (b) Contact probability curves comparing RAD21-depleted RCMC samples against a DMSO control (top) and RAD21-depleted Micro-C samples against a DMSO control (bottom). Arrows indicate the contact frequency ‘bump’ lost upon RAD21 depletion.
