Figure 1. Single-cell proteomic and transcriptomic profiling of colon and blood cells from people with HIV.

(A) Schematic overview of experimental design and sample processing pipeline. (B) Uniform manifold approximation and projection (UMAP) visualization of the combined dataset of scRNAseq and surface protein abundance for matched colon and blood cells from 10 people with HIV (PWH) on antiretroviral therapy (ART) and 1 HIV-seronegative participant. Visualization shown is after reciprocal principal component analysis (RPCA) correction. Top: Blood-derived cells highlighted in red. Bottom: Colon-derived cells highlighted in blue. (C) UMAP visualization of cell clusters colored and labeled by annotated cell type. (D) Dot plot of gene expression levels from scRNAseq dataset, including both stimulated and unstimulated cells, organized by clusters (y axis) and gene of interest (x axis). Shown are key markers used in identification and annotation of cell types.