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. 2024 Oct 30;5(11):1713–1736. doi: 10.1038/s43018-024-00773-6

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© The Author(s) 2024

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 licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence 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 licence, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 7 — a, Dot-plots showing average scaled expression of basal-like BC lineage markers. Markers are divided into genes expressed highly in LP cells but not in basal-like BC (top), genes with increased expression in basal-like BC compared to LP cells (middle) and genes high in both groups (bottom). Gene lists are shown for specific groups. b, Dot-plots showing average scaled expression of luminal A/B BC lineage markers. Markers are divided into genes expressed highly in LM cells but not in luminal BC (top), genes with increased expression in luminal A BC compared to LM cells (middle) and genes with increased expression in luminal B BC compared to LM cells (bottom). Dot size indicates average scaled gene expression. Gene lists are shown for specific groups. c, Gene expression across cell types of cell surface tumor-specific markers: MELK identified for basal samples and CACNG4 identified for luminal samples. d, Coverage plot of normalized snATAC-seq chromatin accessibility across the promoter region of CACNG4 for tumor subtypes and benign breast cell types.