Fig. 3: Eaf3 co-localizes a set of loci marked by Ash1-H3K36me2.

Metaplots (a) and heatmaps (b) showing the Eaf3 ChIP-seq signals of Eaf3-occupied and random regions in the EAF3-GFP strain. The average signals within 3-kb genomic regions flanking peak summits and random regions are shown. c Distribution of Eaf3-occupied and random regions. The promoter of genes, TTS, exon, intron, and intergenic region are shown. d Metagene plots showing H3K36me2 and H3K36me3 ChIP-seq signals of the Eaf3-occupied regions in the WT and ∆eaf3 strains. e Heat maps showing H3K36me2 and H3K36me3 ChIP-seq signals of the Eaf3-occupied regions in the WT and ∆eaf3 strains. f A Venn diagram showing significant overlap of the gene sets between Ash1-H3K36me2-marked and Eaf3-occupied. The significance of overlap was determined using two-sided Fisher’s exact test. g Box plots and violin plots showing average transcriptions of the genes with and not Eaf3 occupancy in the indicated strains. For box-plot, the horizontal lines from top to bottom represent the maximum, first quartile, median, third quartile, and minimum of the total data respectively. Statistical significance was assessed by a two-tailed Student’s test. n.s., no significance. h Relative abundance of Eaf3-GFP in the indicated strains, which calculated by ImageJ software and that of WT was set as 1. Values are average ± SD from five replicates. i Metagene plots showing Eaf3 ChIP-seq signals of the Eaf3-occupied regions in the WT and ∆ash1 strains. j IGV showing Eaf3-GFP, H3K36me2, and H3K36me3 occupancy from ChIP-seq and RNA-seq assays in the indicated strains. k–m ChIP-qPCR assays were performed to validate the ChIP-seq results. Relative enrichments of Eaf3 (k), H3K36me2 (l), and H3K36me3 (m) are shown. I and II indicated the amplified fragments in the ChIP-qPCR assays. Values are means ± SD from three technical replicates. For h, k–m, statistical significance was assessed by a two-tailed Student’s test (**P < 0.01). For a–e, i, j, metaplots, heatmaps, and IGV snapshots are shown with one biological replicate, and similar results were gained in another replicate.