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. 2024 Oct 28;56(10):2309–2322. doi: 10.1038/s12276-024-01252-9

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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. 2 — a t-SNE plots of PDGFRA+ cells (dots) obtained from the control (orange, n = 3) and CL-treated (blue, n = 3) cells. b t-SNE plots showing the nine clusters (C1-9) of PDGFRA+ cells. Different colors were used to distinguish the clusters. c Four groups of the nine clusters (AFEC, Progen, Prolif, and Diff). A dendrogram of C1-9 was obtained from hierarchical clustering of the mean expression profiles in C1-9. The heatmap shows the increased (red) and decreased (blue) expression (Z score) of the upregulated genes (rows) in at least one cluster with respect to the median expression across all the samples (columns). The Z score was obtained by the inverse normal distribution of the mRNA expression level and log-normalized molecular count. The numbers of upregulated genes in each cluster are denoted in parentheses. d t-SNE plot showing the expression levels of the indicated representative upregulated genes in the four groups. The color bar represents the gradient of the mRNA expression level, and the same gradient was used for the range between the minimum (zero) and the maximum expression levels of each gene. e Violin plots showing the distributions of the mRNA expression levels of each representative upregulated gene in the four groups. ***P < 0.001 by one-way analysis of variance (ANOVA) with Tukey’s correction.