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. 2022 Aug 10;608(7922):360–367. doi: 10.1038/s41586-022-05023-2

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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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Extended Data Fig. 11 — a, c, e, g, i, Transcript UMAPs of all spots labelled by cluster from human lymph node (a), human squamous cell carcinoma (c), malignant childhood brain tumour diagnosed as medulloblastoma (e) human invasive ductal breast carcinoma (g), malignant childhood brain tumour diagnosed as medulloblastoma SHH grade IV (i). b, d, f, h, j, H&E stain and unbiased cluster spots visualized spatially on tissue from human lymph node (b), human squamous cell carcinoma (d), childhood medulloblastoma (f), human invasive ductal breast carcinoma (h), human glioblastoma multiforme (j). k-n, somatic copy number alterations in breast tissue containing ductal breast cancer and DCIS (k, l) and brain tissue containing glioblastoma (m, n). While some of the samples did not have an annotated benign reference set, interestingly, unsupervised siCNV could still segment different histological clones. However, the lack of a reference set did reduce the ability to identify specific inferred CNVs.