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. 2022 Jun 6;3(7):885–898. doi: 10.1038/s43018-022-00391-0

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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. 1 — a, Schematic of chromatin accessibility, transcriptome and TCR profiling, and validation at the protein level of cells from peripheral blood, tumor tissue and adjacent normal tissue in early-stage ccRCC patients. Imaged created with BioRender.com. b, UMAP projection of 18,736 scATAC-seq profiles of T cells from peripheral blood, tumor tissue and adjacent normal tissue combining eight patient samples. Dots represent individual cells and colors indicate cluster identity, specified next to each cluster. c, UMAP projection of T cells colored by tissue of origin. d, Heatmap of gene activity scores of the most accessible genes in each cluster (LFC ≥ 1, FDR ≤ 0.05 compared with other clusters) derived from b. e, Genome tracks of aggregate scATAC-seq data visualization of the LEF1 locus, clustered as indicated in b. f, Heatmap representation of ATAC-seq chromVAR bias-corrected deviations in the 49 most variable TFs across all scATAC-seq clusters. Cluster identities are indicated at the top of the plot.