Among them, rs122989222 (p = 6.16 × 10−9, OR = 3.02) showed the most significant association and the rs12309809 (p = 8.96 × 10−8, OR = 2.93) was associated with the cis expression quantitative trait locus (eQTL) for SLC15A4, which has been known an SLE susceptibility gene in a Chinese population. This evidence concerns the gene SLC15A4 and systemic lupus erythematosus.