Figure 5.

Subcluster analysis demonstrated heterogeneity of synovial fibroblast population within the integrated synovial single-cell map dataset of inflammatory arthritis from 25 fresh-dissociated synovial biopsies of patients with inflammatory arthritis

(A) UMAP with annotated synovial fibroblast clusters colored by cell clusters.

(B) A bar plot of synovial fibroblast cluster abundances across synovial biopsy samples of patients with inflammatory arthritis colored by cell cluster.

(C) The proportions of the seven synovial fibroblast clusters across 25 synovial samples from patients with inflammatory arthritis. The box plot visualises 5 summary statistics: the median; two hinges, corresponding to the first and the third quartiles; two whiskers. The upper (lower) whisker extends from the hinge to the largest (smallest) value no further then 1.5∗ interquartile range from the hinge. Individual dots represent data from different samples.

(D) Violin plots showing the top enriched matrix-remodeling genes (LOXL2, TGFBI, TGFB1), expressed by the SERPINE1+ COL5A3+ synovial fibroblasts (cluster 4).

(E) Violin plots showing the top enriched genes, expressed by the SOD2^high synovial fibroblast subpopulation within cluster 7, including SDC4 and proinflammatory genes (SAA1, SAA2, CCL20).

(F) UMAPs demonstrating C3 and CXCL14 mRNA expression in synovial fibroblasts, identifying a small population of C3^high CXCL14^high cells within the sublining GGT5^high CXCL12^high synovial fibroblast subset (cluster 6).

(G) A violin plot demonstrating MMP13 mRNA expression in synovial fibroblasts in cluster 1.

See also Figures S8–S10 and S12–S14.