While in Figures 3F–R, we identified 13 key modules with 33 upregulated genes (ITGAL, IL-7, CD27, CD38, GZMK, GZMA, GZMB, NKG7, KLRB1, CD247, CD2, CCL5, CD3D, CD3G, CXCL9, CXCL13, CD8A, IL7R, CCR2, ITK, GATA3, IL2RB, ITGA4, EOMES, BATF, RUNX3, ISG20, OAS2, GBP5, LAP3, SPCS2, SCPS3, SEC11C) and 22 downregulated genes (ADAMTSL1, ADAMTS3, ADAMTS16, SBSPON, GABRB1, GABRB2, BTC, EREG, HOXC6, HOXC9, HOXC10, DISP1, GAS1, SCUBE2, FAH, ADH1C, PLN, CASQ2, RYR2, ANKH, MGP, ENPP1) in RA-SJ versus OA. The gene discussed is CD3D; the disease is rheumatoid arthritis.