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Regionally Smoothed Meta‐Analysis Methods for GWAS Datasets
Author(s) -
Begum Ferdouse,
Sharker Monir H.,
Sherman Stephanie L.,
Tseng George C.,
Feingold Eleanor
Publication year - 2016
Publication title -
genetic epidemiology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.301
H-Index - 98
eISSN - 1098-2272
pISSN - 0741-0395
DOI - 10.1002/gepi.21949
Subject(s) - linkage disequilibrium , genome wide association study , single nucleotide polymorphism , genetic association , imputation (statistics) , meta analysis , snp , statistical power , biology , computational biology , population , statistics , genetics , computer science , gene , mathematics , medicine , missing data , genotype , environmental health
Genome‐wide association studies are proven tools for finding disease genes, but it is often necessary to combine many cohorts into a meta‐analysis to detect statistically significant genetic effects. Often the component studies are performed by different investigators on different populations, using different chips with minimal SNPs overlap. In some cases, raw data are not available for imputation so that only the genotyped single nucleotide polymorphisms (SNPs) results can be used in meta‐analysis. Even when SNP sets are comparable, different cohorts may have peak association signals at different SNPs within the same gene due to population differences in linkage disequilibrium or environmental interactions. We hypothesize that the power to detect statistical signals in these situations will improve by using a method that simultaneously meta‐analyzes and smooths the signal over nearby markers. In this study, we propose regionally smoothed meta‐analysis methods and compare their performance on real and simulated data.