Single nucleotide polymorphism (SNPs) study on X-chromosome in Thai SLE populations

Abstract

Systemic Lupus Erythematosus (SLE) is common autoimmune disease in Thailand which dominantly in females in ratio 9:1 of patients. Previous study has shown that the genetic components especially in X chromosome contributed a lot to the disease development. However, the susceptibility loci in Thai population have not been fully examined. Here, we conducted genome-wide association study (GWAS) on X chromosome using the data from two independent cohorts: primary dataset (controls = 1,683, SLE = 487) and secondary dataset (controls = 1,711, SLE = 455). Through meta-analyzing and imputation base on 1 KGP the two data set, SNP rs1059702 in IRAK1- MECP2- TMEM187 ( p-value = 1.82 x 10-7; OR = 0.68), rs3853839 (p-value = 2.03 x 10-4; OR = 0.74) in Toll-like receptor 7 (TLR7), X:9165034 (p-value = 1.14 x 10-5; OR=1.3) closet FAM9B (Family With Sequence Similarity 9 Member B) and rs12398129 ( p-value = 1.72 x 10-4; OR = 1.39) on CXorf61 was successfully replicated in other populations. In addition, we also identified a number of loci specific with Thai population such as rs6528443 (p-value = 8.71 x 10-6; OR = 3.55) on GPR101 and rs7052503 (p-value = 2.46 x 10-4; OR = 0.77) nearly MIR891A. These loci are involved immune systems may affect to Thai SLE patients, which worth to be further investigated.