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. 2023 Jan 5;13:1068399. doi: 10.3389/fimmu.2022.1068399

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Copyright © 2023 Julé, Lam, Taylor, Hoyt, Wei, Gutierrez-Arcelus, Case, Chandler, Chang, Cohen, Dedeoglu, Halyabar, Hausmann, Hazen, Janssen, Lo, Lo, Meidan, Roberts, Wobma, Son, Sundel, Lee, Sage, Chatila, Nigrovic, Rao and Henderson

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T peripheral helper cells in oligo JIA synovial fluid adopt a distinctive transcriptomic signature characterized by robust expression of CXCL13. Combined data from two previously published datasets of oligo JIA SF Teff (CD4⁺CD25^-) cells studied with 10X Genomics (34, 45). (A) UMAP of SF Teffs from 8 oligo JIA patients, color-coded by cluster. (B) Heatmap of gene expression levels for the top 5 markers identified in each cluster using a Wilcoxon rank sum test, shown for 100 randomly selected cells from each cluster. (C) UMAP of SF Teffs split between ANA^- (9667 cells) and ANA⁺ (7769 cells) groups, color-coded with their Tph signature score. (D) Mean Tph signature score, averaged per patient and cluster. T-test comparisons of ANA^- versus ANA⁺ groups significant at a FDR of 0.05 are indicated with a star. (E) LFC versus AUC plot of differential expression analysis of SF Tph (Clusters 4 and 5) versus other SF Teffs (Clusters 1-3 and 6-10) run with Seurat v4 using the receiving operating characteristic (ROC) approach. (F) UMAP of SF Teffs showing expression levels of selected Tph genes in the top 95% percentile of the gene expression level distribution for each gene. Oligo JIA, oligoarticular juvenile idiopathic arthritis; SF, synovial fluid; ANA, antinuclear antibody; Teff, T effector cell; Tph, T peripheral helper cell; OXPHOS, oxidative phosphorylation; CTL, cytotoxic lymphocyte; UMAP, uniform manifold approximation and projection; AUC, area under the curve; LFC, log2 fold change; FDR, false discovery rate.