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. 2022 Nov 4;13:6619. doi: 10.1038/s41467-022-34395-2

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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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Fig. 4 — a Violin plot of specific gene expression in antigen-presenting CAFs (CAF_ap). b Upper: peer comparison of the interactions of CAF_ap, TAM, and CAF_myo with T-cell clusters. Lower: the instance of interaction pattern presentation in CAF_myo, TAM, and CAF_ap with T-cell clusters. c Bubble plot of mono-macrophage-specific markers in each fibroblast cluster, one-sided Wilcoxon rank-sum test is used to assess the statistical significance of each interaction score. d The evolutionary trajectory along the TAM-CAF_ap-CAF_myo path. Confocal image of multiplexed immunofluorescence staining of PanCK, α-SMA, and CD163 in anaplastic thyroid cancer tissues. Multiplexed immunofluorescence assays are performed twice on tumor samples following assay optimization. e Gene expression alteration and ridgeline plot along the reciprocal trajectory. f Regulon enrichment along the evolutionary trajectory in different cell types. g Violin plot of peripheral nerve-specific genes (MPZ, S100B, PLP1, and LGI4) in CAF_PN. Kruskal-Wallis two-sided test is used to test the significance of gene expression level among different fibroblast clusters. ***p < 0.001.