Extended Data Fig.7 ∣. The BET family protein BRD2 contributes to chromatin compartmentalization. Related to Fig.2.

(a) Snapshots of Micro-C contact maps at different size scales (whole chromosome, 10Mbp, 2Mbp) for Control, Cohesin depletion, BRD2 depletion or in their combination. The number of reads for each condition analyzed are indicated inside the box region in the left panel (M, million reads). Whole chromosome, chromosome 3; 10-Mb region, chromosome1:184M-194M; 2-Mb region, chromosome1:119M-121M.

(b-d) Micro-C analysis of loops (b), TADs (c) and compartments (d) after Cohesin depletion, BRD2 depletion or in their combination. See more details in the Micro-C analysis in the methods section.

(e) Differential saddle plot analysis of Cohesin depletion, BRD2 depletion or in their combination compared to non-treated control cells.

(f) Live cell analysis of cells stably expressing the V5-SNAP tagged full length (FL), N-terminus double bromodomain (BD) and the C-terminus low complexity domain (LCD) of mouse BRD2. Cells were stained with SNAP JF₅₅₂ ligand and counterstained with Hoechst 33342. First column indicates the zoomed-in view of cells marked by the while box in the second column.

(g) WB analysis of cells from (f) analyzed by ant-V5 antibody and the anti-histone H4 antibody.

(h-i) Micro-C analysis of loops (h) and TADs (i) for cells stably expressing FL BRD2 with or without Cohesin depletion. Ectopic expression of FL BRD2 does not restore the loss of Cohesin-dependent chromatin loops or architectural domains.

(j) Micro-C analysis of compartments by the Pearson correlation matrix (chromosome 17) for cells stably expressing FL BRD2 with or without Cohesin depletion.

(k) Quantification of the digitalized A-A compartmental interactions (log10 value of observed/expected) after ectopically expressing FL BRD2 with or without RAD21 depletion from Micro-C experiments. The black solid line in each violin plot represents the median value. *** indicates p < 0.001 by the non-parametric Mann-Whitney test.