Global Reorganization of Replication Domains During Embryonic Stem Cell Differentiation (original) (raw)
Figure 3
Global Reorganization of Replication Domains upon Differentiation of ESCs to NPCs
(A) Replication domain profiles change dramatically upon differentiation of ESCs to NPCs. An exemplary Chromosome 7 segment is shown.
(B and C) NPCs derived from distinct neural differentiation schemes and three independent mESC lines showed fairly similar replication timing profiles, both by visual inspection (B) and high Pearson _R_2 values for pair-wise comparisons of NPCs (C). The low _R_2 values for pair-wise comparisons of ESCs and NPCs confirm that substantial changes occurred upon differentiation (C).
(D–G) Exemplary EtoL (Early-to-Late) (D and E) and LtoE (Late-to-Early) (F and G) consolidation.
(H) Schematic representation of domain consolidation, boundary shift, and isolation.
(I) Summary of replication domain properties in ESCs and NPCs.
(J) Replication domain sizes by chromosome. Chromosome Y was underrepresented on the microarray and was excluded from the analysis.
(K) Box plots of sizes of domains that changed replication timing (EtoL and LtoE), as well as early- and late-replicating domains in NPCs. EtoL and LtoE domains show smaller and tighter distribution than domains in NPCs or ESCs (Figure 2B).