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Fig. 1 | Genome Biology

Fig. 1

From: Common DNA sequence variation influences 3-dimensional conformation of the human genome

Fig. 1

Biological variability in multiple aspects of 3D chromatin conformation. a Browser view to illustrate the Hi-C-derived molecular phenotypes examined here: contact matrices, FIRE, DI, INS, and PC1 (chr8:125,040,000-132,560,000; hg19). Only 4 individuals shown here for illustrative purposes. The full set of individuals is shown in Additional file 1: Figure S1. b Boxplots show correlation between biological replicates from the same cell line (Individuals = “within”, N = 20), and between replicates from different cell lines (Individuals = “between”, N = 760). Statistical significance calculated by two-sided Wilcoxon rank-sum test. See Additional file 1: Figure S4a for schematic of shuffling strategy. These and all boxplots in this manuscript show median as a horizontal line, interquartile range (IQR) as a box, and the most extreme value within 1.5*IQR or − 1.5*IQR as whiskers extending above or below the box, respectively. c The Pearson correlation coefficient between quantile normalized Hi-C matrix replicates from the same cell line (solid line) or different cell lines (dotted line) is plotted as a function of genomic distance between anchor bins. Distances between 0.1 and 1 Mb are highlighted in the magnified sub-panel to the right. d Significance of the difference between the “within” and “between” values in c was calculated at multiple points along the distance-correlation curve by two-sided Wilcoxon rank-sum test. Note that the scale of contact distance here is linear. Yellow bars indicate significance exceeding a Bonferroni-corrected significance threshold (dotted line)

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