Fig. 1

Chromatin profiling revealed the epigenetic regulation of genes. a Circos plot summarizing the chromosomal distribution of epigenetic marks. The outermost circle depicts the ideograms of each chromosome. The second outermost circle represents gene density, with red and white indicating high and low density, respectively. Bar plots in the middle circles present the density of epigenetic marks, including seven histone modifications, DNase I-hypersensitive site (DHS), and DNA methylation levels. The three innermost circles represent the densities of three major transposable elements (TEs) in wheat (CACTA, Gypsy, and Copia). b Peak distribution of each mark surrounding various genomic features. TSS, transcription start site; TES, transcription end site. c Five groups of genes marked by different combinations of epigenetic modifications. The normalized intensity of each mark surrounding genes was recorded for k-means clustering. d Violin plot presenting the distribution of gene expression densities for various groups. e Boxplot presenting the tissue specificity, which is represented by the coefficient of expression variance (CV) across various tissues. The transcriptomic data for seven tissues were published previously [13]. f Top enriched protein families for each gene group ranked based on the enrichment P value. Each circle represents one enriched term. The color intensity of the circle represents the fold enrichment. The size of the circle represents the number of genes in each group with the given term. g Enrichment of each gene group for conserved genes (old) or non-conserved genes (young)