fig6

Figure 6. Knockout of Phf15 affects the expression of genes involved in inflammatory factor secretion and immunoregulatory processes after LPS stimulation. A: volcano plot representing the RNA-seq results. Orange dots represent differentially expressed genes in Phf15 knockout microglia 6 h after LPS administration compared to control (upregulated genes at a cutoff of log₂-fold change > 1.5 and Padj < 0.01; downregulated genes at a cutoff of log₂-fold change < -1.5 and Padj < 0.05); B: GO analysis for upregulated genes shows biological process categories associated with “cytokine secretion” and “immunoregulatory interaction”; C: Upregulated genes associated with “cytokine secretion” and “immunoregulatory interaction” biological process categories 6 h post LPS stimulation. Relative FPKM values were obtained by normalizing FPKM values of Phf15 knockout SIM-A9 microglia to control FPKM values for each gene (n = 3 wells per condition). Statistics are by DESeq2: **P < 0.01, ^$P < 0.001, ^#P < 0.0001; D: Transcription factor binding motifs for the set of upregulated genes 6 h after LPS stimulation are enriched for activator protein 1 (AP-1). LPS: lipopolysaccharide; KO: knockout; FPKM: Fragments per kilobase million; GO: Gene ontology