Fig. 4: Cohesin-dependent genome compaction at the 300 kb scale. | Nature Communications

Fig. 4: Cohesin-dependent genome compaction at the 300 kb scale.

From: Nanoscale 3D DNA tracing in non-denatured cells resolves the Cohesin-dependent loop architecture of the genome in situ

Fig. 4

a, b Genomic overview and single trace examples of two 300 kb genomic regions traced at 10 kb resolution. CTCF ChIP-seq peaks are color-coded by orientation (green forward, red reverse). Scale bars 100 nm. c Median 3D distance scaling from two 300 kb genomic regions in the indicated cells lines. Scaling coefficients from a power law fit (dspatial = (dgenomic) v) are labelled and the resulting fits shown as dashed lines. Shading indicates 95% confidence interval of the median. d Radius of gyration and number of contacts <100 nm for the two regions in the indicated cell lines. See Supplementary Fig. S5 for detailed annotation of the number of traces per region and condition. Violin plots show median values, boxes indicate lower and upper quartiles and whiskers show data range within 1.5 times IQR. n.s.: not significant, *p < 0.05, **p < 0.01. Indicated P-values calculated by non-parametric Conover’s posthoc test with Bonferroni-Holm correction following a Kruskal-Wallis test for overall significance. Source data are provided as a Source Data file.

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