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Meta-Analysis of Genome-Wide Association Studies

Cold Spring Harbor Protocols, 2010
INTRODUCTIONIndividual genome-wide association studies have only limited power to find novel loci underlying complex traits and common diseases. With relatively modest sample and effect sizes, a true association between genotype and phenotype may never meet genome-wide statistical significance (P < 5 × 10-8) in a single study. Through meta-analysis,
Paul I W, de Bakker, Benjamin M, Neale, Mark J, Daly   +2 more
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Genome-Wide Association Analysis Using R

2017
This chapter provides a practical overview of the statistical analysis using R [1] and genotype by sequencing (GBS) markers for genome-wide association studies (GWAS) in oats. Statistical analysis is performed by R package rrBLUP [2] and issues associated with the analysis are addressed along with the R code.
Julio, Isidro-Sánchez, Deniz, Akdemir, Gracia, Montilla-Bascón   +2 more
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Genome-wide pathway analysis of a genome-wide association study on Alzheimer’s disease

Neurological Sciences, 2014
The aims of this study were to identify candidate single nucleotide polymorphisms (SNPs) and mechanisms of Alzheimer's disease (AD) and to generate SNP to gene to pathway hypotheses. An AD genome-wide association study (GWAS) dataset that included 370,542 SNPs in 1,000 cases and 1,000 controls of European descent was used in this study.
Young Ho, Lee, Gwan Gyu, Song
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Genome-wide pathway analysis of a genome-wide association study on multiple sclerosis

Molecular Biology Reports, 2012
The aims of this study were to identify candidate single nucleotide polymorphisms (SNPs) and mechanisms of multiple sclerosis (MS) and to generate SNP to gene to pathway hypotheses. A MS genome-wide association study (GWAS) dataset that included 505,763 SNPs in 500 cases and 500 controls of European descent was used in this study.
Gwan Gyu, Song, Sung Jae, Choi, Jong Dae, Ji, Young Ho, Lee   +3 more
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Practical aspects of genome-wide association interaction analysis

Human Genetics, 2014
Large-scale epistasis studies can give new clues to system-level genetic mechanisms and a better understanding of the underlying biology of human complex disease traits. Though many novel methods have been proposed to carry out such studies, so far only a few of them have demonstrated replicable results.
Gusareva, Elena, Van Steen, Kristel
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Genome-Wide Association Analysis in Chickpea Landraces and Cultivars

Biophysics, 2023
Chickpea (Cicer arientinum) is an important leguminous crop, which is widely grown especially in the Near East. In wet weather conditions, the susceptibility of chickpeas to fungal diseases such as Ascochyta blight and Fusarium blight increases. Thus, selection of disease-resistant and early-ripening varieties is critically needed.
M. A Duk, A. A Kanapin, M. P Bankin, M. A Vishnyakova, S. V Bulyntsev, M. G Samsonova   +5 more
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Genome-Wide Association Analysis in Primary Sclerosing Cholangitis

Gastroenterology, 2010
We aimed to characterize the genetic susceptibility to primary sclerosing cholangitis (PSC) by means of a genome-wide association analysis of single nucleotide polymorphism (SNP) markers.A total of 443,816 SNPs on the Affymetrix SNP Array 5.0 (Affymetrix, Santa Clara, CA) were genotyped in 285 Norwegian PSC patients and 298 healthy controls ...
Karlsen, Tom H., Franke, Andre, Melum, Espen, Kaser, Arthur, Hov, Johannes Roksund, Balschun, Tobias, Lie, Benedicte A., Bergquist, Annika, Schramm, Christoph, Weismüller, Tobias J., Gotthardt, Daniel, Rust, Christian, Philipp, Eva E. R., Fritz, Teresa, Henckaerts, Liesbet, Weersma, Rinse, Stokkers, Pieter, Ponsioen, Cyriel Y., Wijmenga, Cisca, Sterneck, Martina, Nothnagel, Michael, Hampe, Jochen, Teufel, Andreas, Runz, Heiko, Rosenstiel, Philip, Stiehl, Adolf, Vermeire, Severine, Beuers, Ulrich, Manns, Michael, Schrumpf, Erik, Boberg, Kirsten Muri, Schreiber, Stefan   +31 more
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Analysis of Genome-Wide Association Data

2016
The last decade has seen substantial advances in the understanding of the genetics of complex traits and disease. This has been largely driven by genome-wide association studies (GWAS), which have identified thousands of genetic loci associated with these traits and disease.
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Longitudinal Data Analysis in Genome‐Wide Association Studies

Genetic Epidemiology, 2014
ABSTRACTGenome‐wide association studies have led to the discovery of thousands of susceptibility genetic variants (typically single‐nucleotide polymorphisms [SNPs]) for a wide range of complex diseases and traits commonly measured at a single point in time.
Joseph, Beyene, Jemila S, Hamid
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