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Fig. 3 | Genome Biology

Fig. 3

From: NOMe-HiC: joint profiling of genetic variant, DNA methylation, chromatin accessibility, and 3D genome in the same DNA molecule

Fig. 3

NOMe-HiC reveals coordinated GCH methyltransferase footprints at distal regions in spatial proximity. a The coordinated GCH methyltransferase footprint is much stronger at read pairs from the same DNA molecules (top panel) than read pairs from different DNA molecules within the same regions (bottom panel). Each dot in the heatmap represents one read pair within the chromatin loop anchor regions. b GCH methyltransferase concordance levels, measured by Pearson correlation coefficient, Phi correlation coefficient, and tetrachoric correlation, across all chromatin loop anchor regions (>20kb distance between anchors, orange color, n=125,293 in IMR-90 and n=28,464 in GM12878), their matched local regions (utilizing the read pairs from the same anchor and within 1kb distance, black color, n=378,687 in IMR-90 and n=701,019 in GM12878), and matched shuffled read pairs from the same chromatin loop anchor regions (>20kb distance between anchors, blue color)

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