Figure 5. ScRNA-Seq reveals heterogeneous subsets of Tregs and Teffs in oligo JIA SF.

Sorted Tregs (CD4⁺CD25⁺CD127^lo) and Teffs (CD4⁺CD25^–) from the SF of 2 oligo JIA patients were studied with 10x Genomics. (A) Uniform manifold approximation and projection (UMAP) of data set, split by patient and color-coded by hashing antibody. (B) UMAP of global data set (both subjects, 6190 cells), color-coded by cluster. (C) Heatmap showing expression of the top 50 most highly variable genes in 100 randomly selected cells from each cluster. (D and E) UMAP highlighting cells in Treg (D) and Teff (E) clusters, split by patient and annotated with the corresponding percentage of cells in each cluster. Clusters were defined as 1) Th1-like Treg, 2) classical Treg, 3) activated/HLA-DR^hi Treg, 4) CD25^intCD161⁺ Treg, 5) IFN-induced Treg, 6) activated/HLA-DR^hi T peripheral helper–like (Tph-like), 7) Tph-like, 8) CD4⁺ cytotoxic T lymphocytes (CTLs), 9) Th1 effector memory, 10) Th17 effector memory, 11) CXCR3^hi central memory, 12) CXCR3^lo central memory, 13) cells undergoing OXPHOS metabolism, 14) mitotic cells. JIA, juvenile idiopathic arthritis; SF, synovial fluid.