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Fig. 2 | BMC Genomics

Fig. 2

From: Biased visibility in Hi-C datasets marks dynamically regulated condensed and decondensed chromatin states genome-wide

Fig. 2

Bias in explicitly and implicitly normalized Hi-C, and GAM datasets. a Distribution of 1D read-counts of decondensed and condensed domains in raw, HiCNorm-corrected, ICE-corrected Hi-C and GAM datasets of mESCs. Values were scaled from 0 to 1. P-values were calculated using two-tailed Mann-Whitney U tests. b Upper panel: ratio of interaction frequencies of decondensed-to-decondensed and condensed-to-condensed interactions as a function of genomic distance in raw, HiCNorm-corrected, ICE-corrected and GAM datasets. Lower panel: plots after DiSCO correction. c Illustrative examples of raw, HiCNorm-corrected, and ICE-corrected data before and after DiSCO correction. Ratio matrices in the bottom panel show gain and loss of signals after DiSCO correction. GAM data is shown on extreme right for comparison. Additional examples are given in the Fig. S4

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