Fig. 6

Nucleotide composition bias and chromatin organization. a Density of reads obtained after DNA treatment with MNase (left panels), or after immunoprecipitation of the H3 histone (right panels), in K562 and HEK293 cell lines and then mapped to GC exons or AT exons and their flanking introns. b Density of reads obtained after DNA treatment with MNase, or after immunoprecipitation of the histone H3, in K562 and HEK293 cell lines and then mapped to different parts of genes with GC exons or AT exons. c Box plots of the mean coverage of reads obtained after immunoprecipitation of the histone H3 from K562 or HEK293 cell lines and then mapped to exons and introns of genes hosting GC exons or AT exons. “*” corresponds to Wilcoxon’s test P < 0.05. “**” corresponds to Wilcoxon’s test P < 0.001. d Box plots representing the relative difference of density reads obtained after DNA immunoprecipitation using antibodies against different histone modifications (as indicated) and then mapped to GC exons or AT exons. Each box plot represents the values obtained from several publicly available datasets. “*” corresponds to Wilcoxon’s test P < 0.005; “**” corresponds to Wilcoxon’s test P < 0.001; “***” corresponds to Wilcoxon’s test P < 0.0001. e Density of reads obtained from the K562 cell line after immunoprecipitation of DNA using antibodies against different histone modifications (as indicated) and then mapped to different parts of genes with GC exons or AT exons. f Box plots of the mean coverage of reads obtained after DNA immunoprecipitation using antibodies against H3K4me3, H3K9ac, H3K36me3, or H3K9me3, and then mapped to exons of genes with GC exons or AT exons. “***” corresponds to Wilcoxon’s test P < 10⁻⁶