Fig. 7: A/B compartments and SPIN states represent subnuclear regions of distinct replication timing and gene expression.

a, Schematic of human genome folding into A/B compartments, SPIN states, TADs, subTADs and loops integrated with early/late replication timing and IZs. b, SPIN states were classified as either fully embedded within A/B compartments (within), co-registering A/B compartments (co-register) or partially overlapping (other). c, The fraction of each SPIN state co-registered or nested within A/B compartments in H1 cells. d, The average chromatin landscape at IZs in H1 cells. IZs have been grouped depending on their replication timing (RT). The tracks represent the high-resolution replication timing, chromatin compartments, expression and histone marks. e, We computed right-tailed, one-tailed empirical P values using a resampling test with size and A/B compartment-matched null IZs for the intersection of early and late S phase IZs with dot boundaries, dotless boundaries and no boundaries. f, An example of chromatin profiles around IZs (portion of chromosome 2 from 20 Mb to 58 Mb). The tracks represent the chromatin contacts, four groups of IZs depending on their replication timing, the high-resolution replication timing, chromatin compartments, the SPIN states, expression (minus and plus strands), H3K27Ac, H3K4me3 and H2AX.