Extended Data Fig. 6: H3K27 modification dynamics in K27M-mutant NSCs.

a. H3K27me3 peak number in WT and K27M NSC cultures. Total number of peaks in each condition are indicated, n = 2 independent samples. b. Number of ChIP-Rx normalised read counts for SUZ12 (left) and H3K27me3 (right) at ‘Targeted’ and ‘Dispersed’ regions in embryo GCGR-NS13. c. Fold-change in H3K27me3 ChIP-Rx signal at ‘Targeted’ and ‘Dispersed’ sites in WT and K27M hindbrain NSCs for embryos GCGR-NS19 (left) and GCGR-NS13 (right), n = 1/embryo. Data are median values and interquartile ranges (IQR), with whiskers representing quartiles 1/3 ± (1.5 × IQR) respectively. d. Tornado plots and meta tracks of ChIP-Rx normalised SUZ12 and H3K27me3 signal ±10kb of all SUZ12 peak regions in duplicate WT and K27M NSCs. e. Genomic tracks showing SUZ12, H3K27me2 and H3K27me3 ChIP-Rx signal at the indicated genomic loci (chr2:175,593,388-176,711,387 and chr7:155,162,247-156,015,446) in WT and K27M-mutant NSC cultures for embryos. f. Scatter density plots correlating change in H3K27me2 (left) and H3K27me3 (right) with H3K27ac in 10kb genomic bins between H3.3 WT and K27M NSCs. g. Rolling average plots presenting fold-change of H3K27 modifications in ChIP-Rx across chromosome 4 in Ezh2 wildtype and heterozygous knockout mouse ESCs. h. Genome-wide correlation of H3K27ac ChIP-Rx signal in WT and K27M conditions in embryo GCGR-NS13 (top panels) and Ezh2 wildtype and heterozygous knockout mouse ESCs (bottom panels). Correlations of H3K27ac ChIP-Rx read densities are also shown for low abundance regions (right panels). i. Violin plots presenting fold-change of H3K27 modifications in ChIP-Rx in 10kb bins grouped into quintiles based on H3K27ac abundance in WT cells (left panels). The number of bins in each quintile is indicated. Right panels show violin plots presenting the abundance H3K27 modifications within quintiles as per the left panels. Data presented are from each independent embryo sample, n = 1/embryo.