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Fig. 1 | BMC Genomics

Fig. 1

From: Ethylene induces combinatorial effects of histone H3 acetylation in gene expression in Arabidopsis

Fig. 1

Histone acetylation marks are enriched around transcription start sites (TSS) and are positively correlated with gene expression levels in Arabidopsis. a Heat maps show H3K9Ac, H3K14Ac, and H3K23Ac enrichment (IgG normalized reads per kilobase (kb) per million mapped reads (RPKM)) at all genes in Arabidopsis along with relative mRNA values. Scatter plot for mRNAs ranked according to gene expression levels in 3-day-old Col-0 seedlings under air treatment. Heat maps are ranked according to gene expression levels. b H3K9Ac, H3K14Ac, and H3K23Ac peak distributions at the TSS and 200 bp downstream of the TSS (TSS + 200 bp), in intragenic regions (inside exons or introns excluding the peaks that overlapped with the TSS + 200 bp and 3′ UTR), in 3′ UTRs, and in intergenic regions (upstream and downstream of genes). c H3K9Ac, H3K14Ac, and H3K23Ac were highly enriched in genes compared to transposable elements (TEs). IgG normalized RPKM in gene body from the TSS to the transcription termination site (TTS) for each histone mark was calculated in all genes and for TEs. d-f Mean enrichment profiles (Log2 RPKM (ChIP/IgG)) along gene bodies of reads for d H3K9Ac, e H3K14Ac, and f H3K23Ac. Genes were ranked according to relative mRNA expression levels and divided into five equal sets

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