Extended Data Fig. 6: Comparison of H3K4me3 differences between aChIP and eChIP in rapeseed young leaves and rice seedlings.
From: aChIP is an efficient and sensitive ChIP-seq technique for economically important plant organs
a, Pearson correlation for two replicates of H3K4me3 aChIP in rapeseed young leaves and rice seedlings. Each point represents the log2 of mapped reads within the combined peaks of the two replicates. The R value calculated by Pearson correlation coefficient at the combined peaks is shown. b, Comparison of signal-to-noise ratio based on the FRiP for H3K4me3 ChIP-seq datasets in rapeseed young leaves and rice seedlings generated by the indicated methods. c, Comparison of H3K4me3 ChIP-DNA content between aChIP and eChIP methods which maintained uniformity in materials and antibody. Each group contained three replicates, labeled with points in the bar. The value represents the mean ± standard error of mean. d, e, Heatmap of aChIP unique peak signals and expression levels of peak-related genes. The scale regions are 2 kb upstream of the TSS and 2 kb downstream of the TES. f, Bubble chart showing the top 10 enriched GO terms for genes marked by aChIP H3K4me3 unique peaks which comparison with eChIP in rapeseed young leaves and rice seedling, respectively.
