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Fig. 1 | BMC Genomics

Fig. 1

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

Fig. 1

Biased visibility of chromatin domains in in-situ Hi-C datasets. a Scatter plots of raw and corrected read counts (per Mb) in in-situ digested chromatin vs. in-solution digested naked DNA. b Distribution of raw and corrected read counts of in-situ digested chromatin and in-solution digested naked DNA in cLADs and ciLADs. P-values were calculated using one-tailed Mann-Whitney U tests. c Illustrative example of raw and corrected read counts of in-situ digested chromatin and in-solution digested naked DNA along chr4: 20-40 Mb region. d Top: scatter plots of raw and corrected read counts in in-situ Hi-C and in-situ digested chromatin. Bottom: scatter plots of raw and corrected read counts in in-situ Hi-C and in-solution digested naked DNA. ‘ρ’ represents the Spearman’s correlation coefficient. e Distribution of raw and corrected read counts of in-situ Hi-C datasets in cLADs and ciLADs. P-values were calculated using two-tailed Mann-Whitney U test. f Illustrative examples of corrected read counts of in-situ Hi-C datasets along chr7: 100–120 Mb. Regions (i) and (ii) mark constitutively condensed and decondensed regions respectively. Regions (iii)-(v) mark cell-type specific condensed and decondensed states. (ii) (g-i) Same as d-f, but for in-solution Hi-C data obtained from Fraser et al.

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