Figure 2
CPT treatment affects global gene expression in neurons. DIV30 WT2 neurons were untreated or treated for 1 hr with CPT and harvested 3hrs after drug washout; the ATM inhibitor was added 1 hrs prior to CPT. Gene expression and alternative splicing of the samples was analysed using the gene chip human exon array. (a) Volcano plots depicting the log2 fold change (FC, X-axis) of the significantly up- and down-regulated genes in relation to log10 false discovery rate (FDR, Y axis). The number of CPT-modulated genes is indicated in the left (FC ≤ −2 and FDR < 0.05) and right (FC ≥ 2 and FDR < 0.05) quadrants of the plots. (b) Interaction nodes and clusters for the differentially expressed positively and negatively enriched gene sets (FDR < 0.005), generated from WT2 (untreated vs CPT treated) using Cytoscape. On the right are reported the top five DEGs for each cluster’s assigned biological function. (c) Scatter plot of the correlation (R) between the log10 gene length (X axis) and the t-statistic (Y axis) for the up- and down-regulated genes.
