Fig. 3

Correlation of histone modifications and transcription in P. falciparum. a Genes were categorized based on increasing expression levels (based on reads assigned per kilobase of target per million mapped reads (RPKM); enrichments were collected at corresponding genes and Whisker plots were plotted for each category. Whisker plots representing the enrichment of histone modifications (H3K4me2, H3K4me3, H3K9ac, H3K14ac, H4ac, H3K79me3, H4K20me3, H3K4me1, H3K9me3, H3K36me2 and H3K36me3) at the trophozoite stage. Pearson correlation (r) was calculated between the median of gene expression and histone enrichment. Gene expression positively correlates with all histone modifications. Least correlation with transcription was observed with H3K9me3 and H3K36me3 as compared to other histone modifications. b Genes were categorized based on decreasing expression levels (based on RPKM), enrichments were collected at corresponding genes and occupancies of multiple potential repressive histone modifications (H3K9me3, H3K36me2 and H3K36me3) to that of activation marks (H3K4me3, H3K9ac and H4ac) were plotted for each category at trophozoite stage. Linear increase in the ratio of activation to repression mark observed with H3K36me2 suggesting that it is a global repressive mark in P. falciparum. c Fold change in expression was calculated in SET4KO, SET8KO and SETvsKO as compared to wild-type conditions and plotted as a function of decreasing transcription and increasing H3K36me2