scholarly journals Leveraging Family History in Population-Based Case-Control Association Studies

2014 ◽  
Vol 38 (2) ◽  
pp. 114-122 ◽  
Author(s):  
Arpita Ghosh ◽  
Patricia Hartge ◽  
Peter Kraft ◽  
Amit D. Joshi ◽  
Regina G. Ziegler ◽  
...  
Keyword(s):  
Family History ◽  
Association Studies ◽  
Population Based ◽  
Case Control ◽  
Control Association

scholarly journals Combining case-control status and family history of disease increases association power

2019 ◽  
Author(s):  
Margaux L.A. Hujoel ◽  
Steven Gazal ◽  
Po-Ru Loh ◽  
Nick Patterson ◽  
Alkes L. Price
Keyword(s):  
Family History ◽  
Linear Regression ◽  
Threshold Model ◽  
Association Studies ◽  
Case Control ◽  
Posterior Mean ◽  
Genome Wide ◽  
History Of Disease ◽  
History Of ◽  
Control Association

AbstractFamily history of disease can provide valuable information about an individual’s genetic liability for disease in case-control association studies, but it is currently unclear how to best combine case-control status and family history of disease. We developed a new association method based on posterior mean genetic liabilities under a liability threshold model, conditional on both case-control status and family history (LT-FH); association statistics are computed via linear regression of genotypes and posterior mean genetic liabilities, equivalent to a score test. We applied LT-FH to 12 diseases from the UK Biobank (average N=350K). We compared LT-FH to genome-wide association without using family history (GWAS) and a previous proxy-based method for incorporating family history (GWAX). LT-FH was +63% (s.e. 6%) more powerful than GWAS and +36% (s.e. 4%) more powerful than the trait-specific maximum of GWAS and GWAX, based on the number of independent genome-wide significant loci detected across all diseases (e.g. 690 independent loci for LT-FH vs. 423 for GWAS); the second best method was GWAX for lower-prevalence diseases and GWAS for higher-prevalence diseases, consistent with simulations. We also confirmed that LT-FH was well-calibrated (assessed via stratified LD score regression attenuation ratio), consistent with simulations. When using BOLT-LMM (instead of linear regression) to compute association statistics for all three methods (increasing the power of each method), LT-FH was +67% (s.e. 6%) more powerful than GWAS and +39% (s.e. 4%) more powerful than the trait-specific maximum of GWAS and GWAX. In summary, LT-FH greatly increases association power in case-control association studies when family history of disease is available.

A Retrospective Likelihood Approach for Efficient Integration of Multiple Omics Factors in Case-Control Association Studies

2015 ◽  
Vol 39 (3) ◽  
pp. 156-165 ◽  
Author(s):  
Brunilda Balliu ◽  
Roula Tsonaka ◽  
Stefan Boehringer ◽  
Jeanine Houwing-Duistermaat
Keyword(s):  
Association Studies ◽  
Case Control ◽  
Efficient Integration ◽  
Retrospective Likelihood ◽  
Likelihood Approach ◽  
Control Association

scholarly journals Robust ranks of true associations in genome-wide case-control association studies

2007 ◽  
Vol 1 (S1) ◽  
Author(s):  
Gang Zheng ◽  
Jungnam Joo ◽  
Jing-Ping Lin ◽  
Mario Stylianou ◽  
Myron A Waclawiw ◽  
...  
Keyword(s):  
Association Studies ◽  
Case Control ◽  
Genome Wide ◽  
Control Association

scholarly journals Analysis of Case-Control Association Studies: SNPs, Imputation and Haplotypes

2009 ◽  
Vol 24 (4) ◽  
pp. 489-502 ◽  
Author(s):  
Nilanjan Chatterjee ◽  
Yi-Hau Chen ◽  
Sheng Luo ◽  
Raymond J. Carroll
Keyword(s):  
Association Studies ◽  
Case Control ◽  
Control Association
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