Fig. 2

Differential Gene Expression in H3.3K27M Mutation and EZH1/2 Knockout vs. Isogenic Wild Type. (A) PCA plot demonstrates that the samples cluster based on cell type and mutation status. (B–F) Volcano plots illustrating RNA-seq results comparing K27M and EZH1/2 KO mutants to their respective isogenic wild-type controls. Log2 fold change (FC) is plotted on the x-axis to show expression changes, and negative log10 of the adjusted p-value (padj) on the y-axis for statistical significance. Red points signify genes with statistically significant changes (padj < 0.05) and a log2 FC beyond ± 1.5. Vertical dashed lines mark the threshold of log2 FC at ± 1.5; red points to the left indicate downregulated genes, and to the right are upregulated genes in mutants relative to wild-type controls. Gene names are annotated to minimize overlap (max.overlaps set to 50), facilitating readability of significant gene markers