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Fig. 2 | Genome Biology

Fig. 2

From: HIFI: estimating DNA-DNA interaction frequency from Hi-C data at restriction-fragment resolution

Fig. 2

Recapitulation of 5C observations by HIFI-MRF. a IF matrix obtained by 5C of the 4.5-Mb locus surrounding the Xist gene in mouse embryonic stem cells [7]. Note the use of true-size heatmaps, where the height (resp. width) of a row (resp. column) is proportional to the size of the RF it represents. b Raw, RF resolution Hi-C data for the same region [6]. c Correlation of 5C and raw Hi-C data at RF resolution (Pearson rpb = 0.16, p value <10−16; Spearman ρs = 0.27, two-sided Student’s t test p value <10−16); stratum-adjusted correlation coefficient (SCC) [30] = 0.05). d IF matrix estimated by HIFI-MRF from the same Hi-C data. Observe the similarity to the 5C data in a. e Correlation of 5C and HIFI-MRF-processed Hi-C data at RF resolution (Pearson rpb = 0.26, p value <10−16; Spearman ρs = 0.69, p value <10−16); SCC = 0.10)

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