Extended Data Fig. 6: Spatial transcriptomic analysis of inflamed RA synovial tissue.
From: Drivers of heterogeneity in synovial fibroblasts in rheumatoid arthritis
a, H&E staining of second tissue section used for ST (RA6 in Supplementary Table 1) (n = 2 tissues for ST). b, c, IF images of serial tissue sections directly adjacent to those used for ST analysis for RA3 (b) and RA6 (c) stained for PDPN (red), CD68 (green), CD19 (cyan) and CD3 (magenta). (n = 2 tissues, 4 sections adjacent to those used for ST). d, Relative expression of gene signatures of FLS states in each RNA capture area on the ST slide. e, Relative expression of selected FLS cytokine response gene signatures in each RNA capture area on the ST slide. f, Correlation between FLS state gene signatures derived from scRNA-seq data, in vitro cytokine response gene signatures (select ones shown in e) and cell types as defined by topic modeling within individual RNA capture spots for RA6.
