Fig. 3.

Copy number estimation of the double minutes and expression analysis of the genes carried by them in the relapse sample of SJHGG019. a Variant allele frequency (VAF) vs. coverage for SNVs in segments specific to dmI, dmII, dmIII, and dmIV. b Distribution of the ratio of alternative allele reads count versus reference allele reads count of the germline SNVs on the upper half of panel A for dmI, dmII, dmIII, and dmIV. The vertical dashed line represents the median of the distribution, i.e., the estimated copy number of the double minute per cell. c Gene expression (characterized by log2FPKM) comparison between the relapse sample of SJHGG019 and the other non-brainstem pediatric HGG samples for genes carried by one or two identified double minutes. Each violin plot represents the distribution of gene expression levels across the samples, and the red dot represents the expression level of SJHGG019 relapse sample