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. 2022 May 10;13:2558. doi: 10.1038/s41467-022-30050-y

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© The Author(s) 2022

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 3 — Oncoprint of recurrent non-protein-coding genes in PCNSL (a). Shown are the total numbers of structural variants (SVs), small insertions/deletions (INDELs), single nucleotide variants (SNVs), estimated ploidy, and tumor cell content (TCC) (top panel). Mutated genes are listed from top to bottom depending on their alteration frequency. Oncoprint of recurrent kataegis events in PCNSL (b). Mutated genes are listed from top to bottom depending on chromosome location. The corresponding dot plot reflects the log2 fold change and significance of alteration frequencies in the other subcohorts and RNAseq subgroups compared to PCNSL. In panels a and b the size of the dots demonstrate the significance according to a two-tailed Fisher’s exact test not corrected for multiple testing. The violin plot c shows that the RNA expression of genes with kataegis loci compared to those without were significantly higher for antisense, long non-coding RNA, miRNA and protein coding genes (one-sided Wilcoxon rank sum test, p < 0.05). Box and whisker plots are embedded in the violin plots, showing median (center line), the upper and lower quartiles (the box), and the range of the data (the whiskers), excluding outliers.