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. 2021 Apr 19;17(4):e1008926. doi: 10.1371/journal.pcbi.1008926

Fig 6. Assessment of histone modifications at promoters of repetitive DNA elements.

Fig 6

(A) Mean histone modification densities (HMDs) about promoters for classes of all repetitive elements, as defined by k-means clustering. Corresponding analyses of LINE, SINE, and Simple Repeat elements in S13 Fig. (B) Heatmap of repeat promoters with newly measurable HMD in SmartMap analysis, sorted on first principal component of repetitive elements. (C) Proportion of each cluster comprised by each repeat class or family for all repeats (left), LINE elements (center), and SINE elements (right). All significance tests performed as post-hoc Bonferroni-corrected pairwise 2x2 chi-square tests. (D) Quantile boxplots of average normalized RNA-seq read depth across LINE elements for each LINE cluster. Solid line with marker represents 90th percentile; dashed line with marker represents 95th percentile. Significance test shows difference in median by Bonferroni-corrected pairwise Mood’s median tests. Significance markers: *p<0.01, **p<10−5, ***p<10−10.