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Fig. 1 | Genome Biology

Fig. 1

From: TAD-like single-cell domain structures exist on both active and inactive X chromosomes and persist under epigenetic perturbations

Fig. 1

Chromatin tracing reveals the fine folding architecture of inactive and active X chromosomes. (Target region: ChrX: 76,800,000–77,640,000, hg18). A Schematic illustration of the chromatin tracing approach (i), raw images of the chromatin tracing (ii), co-immunofluorescence of mH2A1 and co-RNA FISH of XIST (iii), and a reconstructed chromatin trace showing two domains separated by a white dashed line (iv). In ii, the white dashed line in the top panel outlines a cell nucleus. The yellow boxed region containing a copy of the targeted chromatin region is shown in the lower panels of ii. The four rows of panels correspond to Hybs-0, 1, 2, and 14 as indicated on the left. B Mean spatial distance matrix of the traced genomic region calculated from pooled X chromosome copies including both active and inactive X’s in IMR-90 cells. C Hi-C contact frequency matrix of the same genomic region as in B. CTCF and RAD21-binding peaks are illustrated in blue and pink respectively. D Comparison of mean spatial distance from chromatin tracing with contact frequency measured by Hi-C. E Separate mean spatial distance matrices from inactive (left) and active (right) X chromosomes. The yellow lines in B and E represent the ensemble TAD boundary

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