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. 2023 Jan 30;2(2):112–125. doi: 10.1038/s44161-022-00208-4

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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 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. 7 — a. UMAP visualization of tissue distribution of PBMC and plaque CD4⁺ T cells. b. Heatmap with expression of T cell function-associated genes in CD4⁺ T cell clusters. c. Circle plot visualizing the overlap of clonotypes between all CD4⁺ clusters. Each color represents a different cluster. Axis indicates the number of TCRs. Line thickness indicates the number of overlapping clonotypes. d. Violin plots depicting expression of CCR4 and CCR10 in CD4+ T cell clusters. e. Circle plots depicting clonal expansion levels of CD4⁺ T cells per tissue and per patient. f. Circle plots depicting tissue-enrichment scores of CD4+ T cells per tissue and per patient. Clonotype expansion levels: Single (one occurrence), Small (≤0.1%), Medium (>0.1 & ≤1%), Large (>1 & ≤10%), Hyperexpanded (>10%), percentage of all CD4⁺ T cells. Tissue enrichment scores: Plaque-enriched (Frequency expanded clone higher in Plaque vs. PBMC), Single (one occurrence), Unenriched (Frequency expanded clone similar in PBMC vs. Plaque), PBMC-enriched (Frequency expanded clone higher in PBMC vs Plaque).

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