Novel genetic analysis for case-control genome-wide association studies: quantification of power and genomic prediction accuracy

Lee, Sang Hong and Wray, Naomi R. (2013) Novel genetic analysis for case-control genome-wide association studies: quantification of power and genomic prediction accuracy. PLoS One, 8 8: . doi:10.1371/journal.pone.0071494

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Author Lee, Sang Hong
Wray, Naomi R.
Title Novel genetic analysis for case-control genome-wide association studies: quantification of power and genomic prediction accuracy
Journal name PLoS One   Check publisher's open access policy
ISSN 1932-6203
Publication date 2013-08
Year available 2013
Sub-type Article (original research)
DOI 10.1371/journal.pone.0071494
Open Access Status DOI
Volume 8
Issue 8
Total pages 7
Place of publication San Francisco, United States
Publisher Public Library of Science
Collection year 2014
Language eng
Abstract Genome-wide association studies (GWAS) are routinely conducted for both quantitative and binary (disease) traits. We present two analytical tools for use in the experimental design of GWAS. Firstly, we present power calculations quantifying power in a unified framework for a range of scenarios. In this context we consider the utility of quantitative scores (e.g. endophenotypes) that may be available on cases only or both cases and controls. Secondly, we consider, the accuracy of prediction of genetic risk from genome-wide SNPs and derive an expression for genomic prediction accuracy using a liability threshold model for disease traits in a case-control design. The expected values based on our derived equations for both power and prediction accuracy agree well with observed estimates from simulations.
Keyword Traits
Risk
Loci
Diseases
Q-Index Code C1
Q-Index Status Confirmed Code
Institutional Status UQ

Document type: Journal Article
Sub-type: Article (original research)
Collections: Queensland Brain Institute Publications
Official 2014 Collection
 
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Citation counts: TR Web of Science Citation Count  Cited 11 times in Thomson Reuters Web of Science Article | Citations
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