Fig. 3: Comparative analysis of H3K9bhb and other histone modifications in rice.

a Metaplots and heatmaps of H3K9bhb and other chromatin modification profiles in the wild-type background. RPKM: reads per kilobase per million mapped reads. b Correlation between H3K9bhb and other chromatin modifications. c H3K9bhb signal intensity in genes grouped into four categories based on their RNA-seq counts: top, middle, low, and bottom quartiles. TSS: transcriptional start site. d Left: Box plots showing gene expression levels of clustered genes from (a). Right: Box plots showing chromatin opening state levels of clustered genes from (a). TPM: transcripts per kilobase million. In the box plots, horizontal lines represent medians, and box limits indicate the 25th and 75th percentiles. P-values were determined by a two-tailed, paired Student’s ttest. e GO pathway enrichment analysis of cluster I genes from (a). f Expression analysis of cluster I genes from (a) under different stress treatments.