scRNA-seq data. (A) Number of cells analyzed by scRNA-seq (10X). Pie charts represent the clonal distribution of cells used for single-cell RNA analysis in resting and activated conditions. Red slices represent the HIV-1⁺ CD4⁺ T cell clones, with frequency shown in white. HIV-1–negative clones are presented in green, yellow, orange, and blue. (B) Projection of the RNA expression data of 41,001 cells from the HIV-1⁺ CD4⁺ T cell clones on a multimodal UMAP of CD4⁺ T cells from HIV-negative donors, in resting and activated states. HIV-1⁺ CD4⁺ T cell clones are represented as dots. Red dots represent cells expressing HIV-1 RNA and white dot represent cells transcriptionally silent. (C) Classification of transcriptionally silent cells from each clone into CD4⁺ T cells subpopulation, based on the UMAP projection, in resting (R) and activated (A) conditions. (D) Classification of transcriptionally active cells from each clone into CD4⁺ T cells subpopulation, based on the UMAP projection, in resting (R) and activated (A) conditions.