Joint analysis is more efficient than replication-based analysis for two-stage genome-wide association studies

2006 ◽  
Vol 38 (2) ◽  
pp. 209-213 ◽  
Author(s):  
Andrew D Skol ◽  
Laura J Scott ◽  
Gonçalo R Abecasis ◽  
Michael Boehnke
Keyword(s):  
Association Studies ◽  
Genome Wide Association ◽  
Joint Analysis ◽  
Genome Wide Association Studies ◽  
Two Stage ◽  
Genome Wide

scholarly journals Robust Joint Analysis with Data Fusion in Two-Stage Quantitative Trait Genome-Wide Association Studies

2013 ◽  
Vol 2013 ◽  
pp. 1-12
Author(s):  
Dong-Dong Pan ◽  
Wen-Jun Xiong ◽  
Ji-Yuan Zhou ◽  
Ying Pan ◽  
Guo-Li Zhou ◽  
...  
Keyword(s):  
Quantitative Traits ◽  
Genetic Model ◽  
Association Studies ◽  
Statistical Significance ◽  
Genome Wide Association ◽  
Joint Analysis ◽  
Genome Wide Association Studies ◽  
Two Stage ◽  
Rheumatic Arthritis ◽  
Genome Wide

Genome-wide association studies (GWASs) in identifying the disease-associated genetic variants have been proved to be a great pioneering work. Two-stage design and analysis are often adopted in GWASs. Considering the genetic model uncertainty, many robust procedures have been proposed and applied in GWASs. However, the existing approaches mostly focused on binary traits, and few work has been done on continuous (quantitative) traits, since the statistical significance of these robust tests is difficult to calculate. In this paper, we develop a powerfulF-statistic-based robust joint analysis method for quantitative traits using the combined raw data from both stages in the framework of two-staged GWASs. Explicit expressions are obtained to calculate the statistical significance and power. We show using simulations that the proposed method is substantially more robust than theF-test based on the additive model when the underlying genetic model is unknown. An example for rheumatic arthritis (RA) is used for illustration.

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