Association analyses confirm five susceptibility loci for systemic lupus erythematosus in the Han Chinese population

Introduction Systemic lupus erythematosus (SLE) is a multisystem autoimmune disease. Currently, numerous genetic loci of SLE have been confirmed. Here we try to further explore additional genes contributing to SLE susceptibility in this study. Methods Forty nine single nucleotide polymorphisms (SNPs) with moderate-risk for SLE in previous study were genotyped in a large-scale replication study with a total of 3,522 cases and 8,252 controls using the Sequenom Massarray system. Association analyses were performed using logistic regression with gender or sample cohorts as a covariate through PLINK 1.07 software. Results This replication effort confirmed five reported SLE susceptibility loci reaching genome-wide levels of significance ( P meta <5.00 × 10 −08 ): TNFSF4 (rs1418190, odds ratio (OR) = 0.81, P meta = 1.08 × 10 −08 ; rs4916219, OR = 0.80, P meta = 7.77 × 10 −09 ), IRF8 (rs2934498, OR = 1.25, P meta = 4.97 × 10 −09 ), miR-146a (rs2431697, OR = 0.69, P meta = 1.15 × 10 −22 ), CD44 (rs2732547, OR = 0.82, P meta = 1.55 × 10 −11 ), and TMEM39A (rs12494314, OR = 0.84, P meta = 1.01 × 10 −09 ). Further logistic regression analysis indicated that the genetic effects within TNFSF4 detected in this study are independent from our previously reported signals. Conclusions This study increases the number of established susceptibility loci for SLE in Han Chinese population and highlights the contribution of multiple variants of modest effect. Although further studies will be required to identify the causal alleles within these loci, the findings make a significant step forward in our understanding of the genetic contribution to SLE in Chinese population.