Fig. 1.

Correlations between clinical disease activity indices and the expression of 51,452 probe sets in 65 synovial biopsy samples from untreated and treated patients with rheumatoid arthritis (RA). a Distribution of Pearson r correlation coefficients between disease activity score in 28 joints assessed by C-reactive protein level (DAS28-CRP)/simplified disease activity index (SDAI)/clinical disease activity index (CDAI) and synovial gene expression levels. b Overlap between probe sets displaying a Pearson r correlation coefficient >0.5 with DAS28-CRP, SDAI and CDAI. c, d Gene set enrichment analyses and eigenvalues calculations using probe sets displaying a Pearson r correlation coefficient >0.5 with DAS28-CRP indicate that the majority of them are downregulated by tocilizumab in synovial tissue in RA (c), and a large proportion are induced by TNFα in cultured fibroblast-like synoviocytes (FLS) or monocytes (d). e Pathway analyses (http://david.abcc.ncifcrf.gov) indicate that transcripts displaying a Pearson r correlation coefficient >0.5 with DAS28-CRP are significantly enriched in genes associated with T cell activation, inflammatory responses, antigen presentation and lysosomes. Probe sets belonging to these pathways are downregulated by tocilizumab in RA synovial tissue