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Confirmation of five novel susceptibility loci for systemic lupus erythematosus (SLE) and integrated network analysis of 82 SLE susceptibility loci

Title
Confirmation of five novel susceptibility loci for systemic lupus erythematosus (SLE) and integrated network analysis of 82 SLE susceptibility loci
Author
배상철
Keywords
GENOME-WIDE ASSOCIATION; T-CELL; FUNCTIONAL INTERPRETATION; EXPRESSION; PROTEIN; VARIANTS; DISEASE; GENES; APOPTOSIS; PATHWAYS
Issue Date
2017-03
Publisher
OXFORD UNIV PRESS
Citation
HUMAN MOLECULAR GENETICS, v. 26, no. 6, page. 1205-1216
Abstract
We recently identified ten novel SLE susceptibility loci in Asians and uncovered several additional suggestive loci requiring further validation. This study aimed to replicate five of these suggestive loci in a Han Chinese cohort from Hong Kong, followed by meta-analysis (11,656 cases and 23,968 controls) on previously reported Asian and European populations, and to perform bioinformatic analyses on all 82 reported SLE loci to identify shared regulatory signatures. We performed a battery of analyses for these five loci, as well as joint analyses on all 82 SLE loci. All five loci passed genome-wide significance: MYNN (rs10936599, P-meta = 1.92 x 10(-13), OR = 1.14), ATG16L2 (rs11235604, P-meta = 8.87 x 10(-12), OR = 0.78), CCL22 (rs223881, P-meta = 5.87 x 10 (16), OR = 0.87), ANKS1A (rs2762340, P-meta = 4.93 x 10 (15), OR = 0.87) and RNASEH2C (rs1308020, P-meta = 2.96 x 10(-19), OR = 0.84) and co-located with annotated gene regulatory elements. The novel loci share genetic signatures with other reported SLE loci, including effects on gene expression, transcription factor binding, and epigenetic characteristics. Most (56%) of the correlated (r(2) > 0.8) SNPs from the 82 SLE loci were implicated in differential expression (9.81 x 10(-198) < P < 5 x 10(-3)) of cis-genes. Transcription factor binding sites for p53, MEF2A and E2F1 were significantly (P < 0.05) over-represented in SLE loci, consistent with apoptosis playing a critical role in SLE. Enrichment analysis revealed common pathways, gene ontology, protein domains, and cell type-specific expression. In summary, we provide evidence of five novel SLE susceptibility loci. Integrated bioinformatics using all 82 loci revealed that SLE susceptibility loci share many gene regulatory features, suggestive of conserved mechanisms of SLE etiopathogenesis.
URI
https://academic.oup.com/hmg/article/26/6/1205/2929510https://repository.hanyang.ac.kr/handle/20.500.11754/113378
ISSN
0964-6906; 1460-2083
DOI
10.1093/hmg/ddx026
Appears in Collections:
COLLEGE OF MEDICINE[S](의과대학) > MEDICINE(의학과) > Articles
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