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. 2023 Jun 4;23:504. doi: 10.1186/s12885-023-11016-9

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© The Author(s) 2023

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/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.

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Fig. 3 — Heatmap showing the molecular subtypes according to the consensus classification (A) and the TCGA classification (B) for each sample as identified by all genes vs. different gene sets (all, ESSEN1, ESSEN2) and assay methods (HTP, MACE). C: Gene expression heatmap of MACE data and the ESSEN1 panel. D: Gene expression heatmap of the ESSEN2 panel with molecular consensus classes assigned using the HTP data. The heatmap was constructed with the open-source Morpheus software (https://software.broadinstitute.org/morpheus/) using log2-transformed normalized gene expression values. Hierarchical clustering was performed with Pearson’s correlation metric with complete linkage. Heatmaps also indicate the IHC-expression of CK5/6 and GATA3. Colors of genes correlate to the signature names. CIS: carcinoma in situ; ECM: extracellular matrix; EMT: epithelial-to-mesenchymal transition; SM: smooth muscle