Fig. 7
DDX39B inhibits expression of factors associated with the ECM, migration, and angiogenesis. a Volcano plot of differentially expressed genes in RNA-seq analysis of GBM44 GSCs expressing two sh-DDX39B constructs compared to a non-targeting control. Red and green dots represent genes up- and downregulated, respectively, in sh-DDX39B cells compared to sh-control. Cutoffs were set at adj. P value < 0.01 (orange line) and log2 (fold change) > 1 or < − 1. Blue dots are specific highlighted genes. b GO term enrichment among genes upregulated in GBM44 GSCs expressing sh-DDX39B compared to sh-control. P values (-log10) of enrichments shown on upper x-axis. c Quantitative PCR (qPCR) analysis of mRNA expression of indicated genes in GBM44 GSCs. Data show mean value relative to GAPDH from three independent experiments, ± SEM, normalized to sh-control. d qPCR analysis of mRNA of indicated genes in nuclear and cytoplasmic fractions of cells expressing sh-DDX39B or sh-control. Data show mean value from two independent experiments, ± SEM relative to RNU1-1, an abundant small nuclear RNA. e qPCR analysis of mRNA in GBM34 GSCs expressing S-tag DDX39B or empty vector (EV). Data show mean value of triplicate samples relative to GAPDH, ± SD and normalized to EV-expressing sample. Repeated with similar results. Inset: IB with anti-S-tag. f qPCR analysis of indicated genes in GBM44 GSCs expressing sh-DDX39B or a non-targeting control, transfected with si-LGP2 or si-control. Data show mean value of triplicate samples relative to GAPDH, ± SD and normalized to sh-control. Repeated with similar results. g Quantification of proteins in GBM44 GSCs expressing sh-DDX39B or sh-control using a membrane-based antibody array. Data show fold change of the indicated protein in sh-DDX39B cells compared to sh-control. Inset: IB with anti-GAPDH demonstrates equal protein loading on membranes. *P < 0.05, **P < 0.01, and ***P < 0.001 (two-tailed t test)