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. 2023 Dec 19;14:8423. doi: 10.1038/s41467-023-44152-8

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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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Fig. 8 — a UMAP representing single-cell RNA-Sequencing of CD4⁺ and CD8⁺ T cells sorted from cerebrospinal fluid (CSF) cells from a human person with HIV-associated TB meningitis. Sorted cells were gated on live, CD3⁺, CD4⁺ and CD8⁺ cells. Clusters were manually identified according to the differential expression of key genes, indicated as follows. b Plots show the relative density of cells expressing each marker gene. c Violin plots show each gene’s relative expression level by cells assigned to each phenotypic cluster. Source data for a–c are located in Supplementary Data S5. d OX40 surface expression in cells from the CSF of 5 individuals treated for HIV-associated TB meningitis. Flow cytometry dot plots indicate the percentage of CD4⁺ or CD8⁺ T cells from a single individual that express OX40, while column dot plots show the paired percentage of CD4 or CD8 T cells from 4 individuals. P value calculated with a paired two-tailed t-test.