Chromosomal compartments are resilient to the depletion of the cohesin subunit RAD21 from noncycling thymocytes in vivo. (A) Eigenvector analysis of chromosomal organization. (B) Compartment tracks (top) and interaction matrices (bottom) for chr13 at 140-kb resolution in control and cohesin-deficient thymocytes. Of 17,548 regions evaluated, only two showed a consistent compartment change from A to B and two from B to A (change in eigenvector value >0.03): chr18: 3640001 and chr18: 33600001. (C) Hi-C compartment data are highly correlated for control and cohesin-deficient thymocytes.