a, Violin plots of compartment scores calculated for 100-kb genomic regions with different LAD dynamics. Number in parentheses represents the percentage of the genome covered by each of the 16 different categories of defined LAD reorganizations from zygote to embryonic stem cell. Violin plots show the values at most 1.5 × IQR and median (red lines). Compartment scores are calculated based on three biologically independent samples. n = number of 100-kb bins b, Experimental schemes of DamID in aphidicolin-treated zygotes and 2-cell embryos. Images show global DNA replication measured by EdU incorporation in control and replication-inhibited embryos. n = number of images of independent experiments. Scale bars, 10 μm. c, Chromosome plots of compartment scores from Hi-C and DamID scores in control and aphidicoline treated zygotes and 2-cell embryos.