Fig. 3: Loss of SETD1A reduces expression of E2F target genes. | Cell Death & Disease

Fig. 3: Loss of SETD1A reduces expression of E2F target genes.

From: Non-catalytic role of SETD1A promotes gastric cancer cell proliferation through the E2F4–TAF6 axis in the cell cycle

Fig. 3

A ChIP-seq signals of SETD1A/RNAP2/Ser2P/H3K36me3 across SETD1A-bound genes (n = 9988) in sgRNA-expressing iCas9-AGS cells after 6 days of Dox treatment. TSS transcription start site, TES transcription end site. B ChIP-seq intensities of SETD1A and RNAP2 at TSS of SETD1A-bound genes in sgRNA-expressing iCas9-AGS cells. C ChIP-seq intensities of Ser2P and H3K36me3 in the bodies of SETD1A-bound genes in sgRNA-expressing iCas9-AGS cells. The gene body was defined as the region from 400 bp downstream of TSS to TES. D MA plot of RNA-seq data shows differentially expressed genes after SETD1A KO in AGS cells after 6 days of Dox treatment. Total, TPM > 1, n = 10697; upregulated, Log2 FC > 0.5, n = 1030; downregulated, Log2 FC < −0.5, n = 3449; FC fold change. E Overlap between SETD1A-downregulated genes in three GC cell lines and SETD1A ChIP-seq-annotated genes in AGS cells. F, G ChIP-seq intensities of Ser2P or H3K36me3 at SNRs and SDRs bodies in sgRNA-expressing iCas9-AGS cells. H Gene Ontology analysis of SDRs using MsigDB 2020 software. Relative genes are listed, and bars of E2F targets are indicated in red.

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