Fig. 6

Single-cell RNA-seq transcriptomic analysis distinguishes different cell types sorted from cryopreserved RA synovium. a Saturation curves indicating complexity of transcriptomes obtained from single cells (fibroblasts or leukocytes) sorted from cryopreserved RA knee arthroplasty tissue. At least five read fragments required for gene to be considered “detected”. b Principal components analysis of single cells from cryopreserved RA synovium, colored by cell type as determined by flow cytometry at time of cell sorting. Top 648 most variable expressed genes (F statistic) used, centered and scaled. PC scores for PC1 (x axis) and PC2 (y axis). c Expression (log₂(TPM + 1)) of selected lineage-characteristic genes in sorted cell populations from cryopreserved RA arthroplasty sample. A total of 96 cells (24 for each type) filtered down to 69 by eliminating low-quality cells (those with more than 10% of reads in well mapped to ERCC) and presumed doublets (those with greater than 2.8 million reads). Representative of two synovial samples. PC principal component