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. 2019 Sep 19;10:4278. doi: 10.1038/s41467-019-12159-9

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© The Author(s) 2019

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. 6 — Aneuploidy indicates global DNA hypomethylation. a Comparison of SCNA levels between tumours with low and high global methylation. Shown here is the combination of cSCNAs and fSCNAs. P values from the two-sided Mann–Whitney U test are shown. b Association of global DNA methylation with cSCNA and fSCNA levels. The values were standardized per tumour type. Spearman’s rank correlation coefficient and its P value are shown. c Partial correlation analyses comparing cSCNAs (red) and fSCNAs (orange) for their correlation with global methylation independently of one another. The Spearman correlation was used. d For each tumour type, samples with a low (<30^th percentile) and high (>70^th percentile) immune signature score were compared by multivariate logistic regression with the standardized global methylation, cSCNA, and fSCNA levels, and tumour purity as predictors. e Partial correlation analyses comparing global methylation (blue) and cSCNAs (red) for their correlation with the immune signature score independently of one another. The Spearman correlation was used. (a–e) These analyses were confined to 11 tumour types for which the cSCNA and fSCNA data were available