Global Reorganization of Replication Domains During Embryonic Stem Cell Differentiation (original) (raw)
Figure 2
Replication Domain Structure and Its Conservation between Three Independent mESC Lines
(A) Identification of replication domains (red lines) and their boundaries (dotted lines) by a segmentation algorithm [32].
(B) Box plots of early (E; log ratio > 0) and late (L; log ratio < 0) replication domain sizes. Horizontal bars represent the 10th, 25th, 50th (median), 75th, and 90th percentiles, respectively.
(C and D) Three different mESC lines (D3, 46C, and TT2) showed remarkably similar replication domain organization, as revealed by visual inspection of a segment on Chromosome 1 (C) and high Pearson _R_2 values for pair-wise comparisons (D).
(E) A scatter plot of replication-timing differential versus physical distance (Mb) between the ends of 75 randomly chosen pairs of adjacent replication domains (replication-timing transition regions) from Chromosomes 2, 11, and 16 (25 each) revealed a positive correlation with a slope that is consistent with mammalian replication fork speeds. A time scale is provided, based on the assumption that replication-timing ratio difference of three roughly corresponds to an approximately 10-h S-phase.