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. 2019 May 15;10:2138. doi: 10.1038/s41467-019-10148-6

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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 — Comparison of ssGSEA scores of the 50 MSigDB hallmark gene sets. a Visualization of ssGSEA scores across non-Basal-like CCLE breast cancer cell lines, MET500 breast cancer samples, and organoids. b DA analysis results of different breast cancer subtypes. Each dot is a hallmark gene set, with the x-axis representing −log10(FDR) derived from MET500-vs-organoids comparison, and the y-axis representing −log10(FDR) derived from MET500-vs-CCLE comparison. c Boxplot of ssGSEA scores of the four representative gene sets. In each box, the central line represents the median value and the bounds represent the 25th and 75th percentiles (interquartile range). The whiskers encompass 1.5 times the interquartile range. Source data are provided as a Source Data file