Extended Data Fig. 7: Characterization of intermediate fibroblast positional gene signature.

a, Gene enrichment scores for intermediate position-specific genes (x) plotted against Notch activation score (y) in synovial organoids (n = 22,164 cells; n = 3 organoids per condition). DAPT indicates that organoids were cultured in the presence of 10 μM γ-secretase inhibitor DAPT. The fibroblast + endothelial cell organoids (yellow) show evidence of increased Notch signalling but little enrichment in intermediate zone genes, as compared to fibroblasts that were cultured alone (blue) or co-cultured in the presence of DAPT (red). b, Enrichment of intermediate gene score in mouse synovial fibroblasts. Enrichment is lowest (red) in the previously identified lining and sublining zones and highest (blue) in the fibroblasts positioned in between the two zones, in the intermediate zone. c, Enrichment of pre-defined synovial fibroblast populations in the AMP-RA/SLE scRNA-seq dataset (n = 1,844 cells).