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Genome-Wide Association Studies (GWAS)
Most of the breeding targets are quantitative traits. In exploring the quantitative trait locus (QTL) system of a trait, linkage mapping was...
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E-GWAS: an ensemble-like GWAS strategy that provides effective control over false positive rates without decreasing true positives
BackgroundGenome-wide association studies (GWAS) are an effective way to explore genotype–phenotype associations in humans, animals, and plants....
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Genome-Wide Association Study (GWAS) for Economically Important Traits in Tea Plant
Genome-wide association study (GWAS), also known as association mapping, is a method of identifying markers or candidate genes through the...
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GWAS Case Studies in Wheat
With the advancements in next-generation sequencing technologies, leading to millions of single nucleotide polymorphisms in all crop species...
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Genome-Wide Association Studies (GWAS) for Agronomic Traits in Maize
Maize is a highly important crop, not only because it is a staple crop for humans but also because it is a major source of feed for animals and has...
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Multi-trait GWAS for diverse ancestries: mapping the knowledge gap
BackgroundApproximately 95% of samples analyzed in univariate genome-wide association studies (GWAS) are of European ancestry. This bias toward...
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An overview of detecting gene-trait associations by integrating GWAS summary statistics and eQTLs
Detecting genes that affect specific traits (such as human diseases and crop yields) is important for treating complex diseases and improving crop...
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BridGE: a pathway-based analysis tool for detecting genetic interactions from GWAS
Genetic interactions have the potential to modulate phenotypes, including human disease. In principle, genome-wide association studies (GWAS) provide...
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Sequence-based GWAS meta-analyses for beef production traits
BackgroundCombining the results of within-population genome-wide association studies (GWAS) based on whole-genome sequences into a single...
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Genome-Wide Association Studies (GWAS) in Cereals
The advent of high-throughput next-generation sequencing technologies in the last decade, coupled with its substantial decrease in cost in the recent...
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A gene based combination test using GWAS summary data
BackgroundGene-based association tests provide a useful alternative and complement to the usual single marker association tests, especially in...
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pandasGWAS: a Python package for easy retrieval of GWAS catalog data
BackgroundSince the NHGRI-EBI Catalog of human genome-wide association studies was established by NHGRI in 2008, research on it has attracted more...
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Next-Gen GWAS: full 2D epistatic interaction maps retrieve part of missing heritability and improve phenotypic prediction
The problem of missing heritability requires the consideration of genetic interactions among different loci, called epistasis. Current GWAS...
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A multi-ancestry GWAS of Fuchs corneal dystrophy highlights the contributions of laminins, collagen, and endothelial cell regulation
Fuchs endothelial corneal dystrophy (FECD) is a leading indication for corneal transplantation, but its molecular etiology remains poorly understood....
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Efficient identification of QTL for agronomic traits in foxtail millet (Setaria italica) using RTM- and MLM-GWAS
Key messageEleven QTLs for agronomic traits were identified by RTM- and MLM-GWAS, putative candidate genes were predicted and two markers for grain...
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BG2: Bayesian variable selection in generalized linear mixed models with nonlocal priors for non-Gaussian GWAS data
BackgroundGenome-wide association studies (GWASes) aim to identify single nucleotide polymorphisms (SNPs) associated with a given phenotype. A common...
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Evaluating 17 methods incorporating biological function with GWAS summary statistics to accelerate discovery demonstrates a tradeoff between high sensitivity and high positive predictive value
Where sufficiently large genome-wide association study (GWAS) samples are not currently available or feasible, methods that leverage increasing...
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GWAS and genomic selection for marker-assisted development of sucrose enriched soybean cultivars
Sucrose concentration in soy-derived foods is becoming a seminal trait for the production of food-grade soybeans. However, limited scientific...
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Genetic dissection of ten photosynthesis-related traits based on InDel- and SNP-GWAS in soybean
Key messageA total of 416 InDels and 112 SNPs were significantly associated with soybean photosynthesis-related traits. GmIWS1 and GmCDC48 might be...
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GWAS determined genetic loci associated with callus induction in oil palm tissue culture
Key messageGWAS identified six loci at 25 kb downstream of WAK2, a crucial gene for cell wall and callus formation, enabling development of a SNP...
