Fig. 4
Transcriptome and H3K27me3 loci implicate H3K27M in neural differentiation a H3K27me3 level difference plot in BT245 dataset, color coded by gene expression changes (green for upregulated in K27M state, purple—downregulated, grey—no significant change in expression). y-axis shows the difference in normalized H3K27me3 levels at promoters in K27M vs. K27M-KO (log2), while x-axis shows normalized H3K27me3 levels in non-K27M state (K27M-KO, log2). Four categories of promoters based on H3K27me3 levels and difference are depicted by squares. b Number and proportion (x-axis) of significantly up or downregulated genes in each selected region from plot 4a (gained in K27M, lost in K27M, retained, absent). Numbers inside the columns show the number of genes up or downregulated in each category, while the number in brackets below column labels shows the total number of genes in that category. c Gene expression changes by deciles in different experimental datasets. The genes were assigned to deciles according to their expression in the original cell line, before manipulation. Most of differentially expressed genes (and upregulated in K27M) are among lower expressed deciles in all four datasets. d Overlap of differentially expressed genes in BT245 and DIPGXIII datasets. Gene set enrichment analysis of differentially expressed genes (genes upregulated in K27M state in both cell lines)
