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. 2018 Apr 30;9:1725. doi: 10.1038/s41467-018-04129-4

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© The Author(s) 2018

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. 2 — Landscape of somatic alterations in SMC and TCGA. a Heatmap showing the integrated statuses of protein-altering somatic mutations and copy number alterations affecting the most frequently altered genes (rows) and samples (columns) from SMC and TCGA. Cell colors represent different types of genomic alterations—Mut (mutation), Amp (amplification), Del (deletion), and Multi (multiple alterations). Genes are sorted by the prevalence of alterations (≥3 samples) in descending order. The bar chart above represents the sample-level count of protein-altering somatic mutations. The unstacked bar chart to the right compares the prevalence of somatic alterations in SMC and TCGA for individual genes. Column color labels represent age-based group (Cohort), intrinsic molecular subtype classifications (Consensus), and menopausal statuses for all samples. b Comparison of TP53 mutation frequencies between SMC and TCGA overall and within individual subtypes. Lobular carcinoma cases were excluded from frequency calculations. c Distribution of TP53 mutation and ERBB2 amplification statuses across PAM50 subtypes in SMC and TCGA. TP53: TP53 mutated, ERBB2: ERBB2 amplified (CN ≥ 6), ERBB2 & TP53: TP53 mutated and ERBB2 amplified, WT: wild-type TP53 and ERBB2