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Family‐based association analysis to finemap bipolar linkage peak on chromosome 8q24 using 2,500 genotyped SNPs and 15,000 imputed SNPs
Author(s) -
Zhang Peng,
Xiang Nan,
Chen Yi,
Śliwerska Elżbieta,
McInnis Melvin G,
Burmeister Margit,
Zöllner Sebastian
Publication year - 2010
Publication title -
bipolar disorders
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 2.285
H-Index - 129
eISSN - 1399-5618
pISSN - 1398-5647
DOI - 10.1111/j.1399-5618.2010.00883.x
Subject(s) - single nucleotide polymorphism , genetics , genetic association , biology , international hapmap project , imputation (statistics) , candidate gene , genome wide association study , linkage disequilibrium , snp , locus (genetics) , genotype , gene , machine learning , missing data , computer science
Zhang P, Xiang N, Chen Y, Śliwerska E, McInnis MG, Burmeister M, Zöllner S. Family‐based association analysis to finemap bipolar linkage peak on chromosome 8q24 using 2,500 genotyped SNPs and 15,000 imputed SNPs.
Bipolar Disord 2010: 12: 786–792. © 2010 The Authors.
Journal compilation © 2010 John Wiley & Sons A/S. Objective: Multiple linkage and association studies have suggested chromosome 8q24 as a promising candidate region for bipolar disorder (BP). We performed a detailed association analysis assessing the contribution of common genetic variation in this region to the risk of BP. Methods: We analyzed 2,756 single nucleotide polymorphism (SNP) markers in the chromosome 8q24 region of 3,512 individuals from 737 families. In addition, we extended genotype imputation methods to family‐based data and imputed 22,725 HapMap SNPs in the same region on 8q24. We applied a family‐based method to test 15,552 high‐quality genotyped or imputed SNPs for association with BP. Results: Our association analysis identified the most significant marker (p = 4.80 × 10 −5 ), near the gene encoding potassium voltage‐gated channel KQT‐like protein ( KCNQ3 ). Other marginally significant markers were located near adenylate cyclase 8 ( ADCY8 ) and ST3 beta‐galactoside alpha‐2,3‐sialyltransferase 1 ( ST3GAL1 ). Conclusions: We developed an approach to apply MACH imputation to family‐based data, which can increase the power to detect association signals. Our association results showed suggestive evidence of association of BP with loci near KCNQ3 , ADCY8 , and ST3GAL1 . Consistent with genes identified by genome‐wide association studies for BP, our results suggest the involvement of ion channelopathy in BP pathogenesis. However, common variants are insufficient to explain linkage findings in 8q24; other genetic variation should be explored.