Optimal designs for two-stage genome-wide association studies
نویسندگان
چکیده
منابع مشابه
Optimal designs for two-stage genome-wide association studies.
Genome-wide association (GWA) studies require genotyping hundreds of thousands of markers on thousands of subjects, and are expensive at current genotyping costs. To conserve resources, many GWA studies are adopting a staged design in which a proportion of the available samples are genotyped on all markers in stage 1, and a proportion of these markers are genotyped on the remaining samples in s...
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The much-anticipated fixed-array, genome-wide SNP genotyping technologies make large-scale genome-wide association scans now possible for large numbers of subjects. In this paper we reconsider the problem (Satagopan and Elston [2003] Genet Epidemiol 25:149-157) of optimizing a two-stage genotyping design to deal with important new issues that are relevant when studies are expanded from candidat...
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Genome-wide association studies are likely to be conducted in large scale in the near future. In such studies, searching over hundreds of thousands of markers for the few ones that are associated with disease brings out the multiple-hypothesis testing problem in its severe form. We explore, in a two-stage design, how the use of false discovery rate (FDR) can alleviate the burden of a prohibitiv...
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We consider two-stage case-control designs for testing associations between single nucleotide polymorphisms (SNPs) and disease, in which a subsample of subjects is used to select a panel of "tagging" SNPs that will be considered in the main study. We propose a pseudolikelihood [Pepe and Flemming, 1991: JASA 86:108-113] that combines the information from both the main study and the substudy to t...
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Large-scale genome-wide association studies are increasingly common, due in large part to recent advances in genotyping technology. Despite a dramatic drop in genotyping costs, it is still too expensive to genotype thousands of individuals for hundreds of thousands single-nucleotide polymorphisms (SNPs) for large-scale whole-genome association studies for many researchers. A two-stage design ha...
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ژورنال
عنوان ژورنال: Genetic Epidemiology
سال: 2007
ISSN: 0741-0395,1098-2272
DOI: 10.1002/gepi.20240