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. Author manuscript; available in PMC: 2016 Sep 24.
Published in final edited form as: Cell. 2015 Sep 10;163(1):134–147. doi: 10.1016/j.cell.2015.08.040

Figure 3. NL contact frequencies are linked to developmental dynamics, gene density, and ploidy.

Figure 3

(A) Estimated contact frequency maps for all chromosomes in clone #14 cells. KBM7 cells carry a balanced translocation between chr9 and chr22 (Burckstummer et al., 2013); vertical dotted lines mark the junctions. Centromeric regions are indicated by grey bars; telomeres by black triangles. chr8 is not shown because it is diploid. (B) Cumulative histogram of genome-wide CF values. (C) Distribution of genomic segments with indicated CFs over constitutive (c) and facultative (f) LADs and inter-LADs (iLADs). (D) Average number of transcription start sites per 100 kb segment, plotted as a function of CF. (E) Comparison of CFs in diploid cells and pseudo-diploid cells. The latter are simulated by combining equal numbers of sequence reads from pairs of haploid cells. See also Figure S2 and Table S1.