In the tissue-by-tissue analysis, expression levels of CTLA4 were associated with 122 SNPs (S3A Fig), including T1D and RA-associated variants rs231775 (+49A/G) [28], rs3087243 (CT60A/G) [28,30], rs231806 (MH30C/G) [28], and rs231735 [8] (pair-wise r2 between the SNPs ranging from 0.51 to 0.90, and strong linkage disequilibrium (LD, r2 > 0.8) between MH30 and CT60, S3C Fig). The gene discussed is CTLA4; the disease is rheumatoid arthritis.