Fig. 3: SFPQ regulates expression of chromatin organization and interferon-related genes. | Nature Communications

Fig. 3: SFPQ regulates expression of chromatin organization and interferon-related genes.

From: The nucleic acid binding protein SFPQ represses EBV lytic reactivation by promoting histone H1 expression

Fig. 3

a Workflow of the RNA-seq analysis performed. Briefly, SFPQ was knocked out in Cas9+ P3HR-1 cells via transduction using lentiviruses that expressed control or either of two independent SFPQ sgRNAs. Transduced cells were puromycin (puro) selected. On Day 3 post selection (Day 6 post transduction), cells were harvested. RNA-seq was performed on ribosomal RNA (rRNA) depleted RNA. b Volcano plot of the −log10(p value) vs. log2(fold change) of mRNA expression in cells expressing SFPQ sgRNA #1 vs. control sgRNA. The adjusted p value (corrected for multiple testing via the Benjamini and Hochberg method) was used. Selected genes that were differentially expressed are highlighted in red (increased) or blue (decreased). c, d The top 10 significantly enriched (adjusted p value < 0.05 calculated using the Benjamini and Hochberg method) gene ontology (GO) Biological Processes of genes that were (c) decreased or (d) increased in abundance in SFPQ depleted (sg #1) vs. control cells.

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