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Genome-Wide Association Studies

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Estimation of a significance threshold for genome-wide association studies

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Mixed linear model approach adapted for genome-wide association studies. Available from:. org/10.1038/ng.546.. Methodological implementation of mixed linear models in multi-locus genome-wide association studies. Available from: https://academic.oup.com/bib/article . Iterative sure independence screening EM- Bayesian LASSO algorithm for multi-locus genome-wide association studies.. https://doi.org/10.1371/journal.pcbi.1005357..

Identification of resistance loci in Chinese and Canadian canola/rapeseed varieties against Leptosphaeria maculans based on genome-wide association studies

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Identification of resistance loci in Chinese and Canadian canola/rapeseed varieties against Leptosphaeria maculans based on genome-wide association studies. Background: The fungal pathogen Leptosphaeria maculans ( Lm. In this study, twenty-two Lm isolates were used to identify resistance genes in a collection of 243 canola/rapeseed ( Brassica napus L.) accessions from Canada and China.

Genome-wide association studies for yield component traits in a macadamia breeding population

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Genome-wide association and genomic selection in animal breeding. Natural variations and genome-wide association studies in crop plants. Nishio S, Terakami S, Matsumoto T, Yamamoto T, Takada N, Kato H, et al.. Identification of QTLs for agronomic traits in the Japanese chestnut (Castanea crenata Sieb. Biscarini F, Nazzicari N, Bink M, Arús P, Aranzana MJ, Verde I, et al. Quality control for genome- wide association studies. Genome-wide association studies and genomic prediction.

Genome-wide association studies targeting the yield of extraembryonic fluid and production traits in Russian White chickens

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Multi-trait analysis of genome-wide association summary statistics using MTAG. Variance component model to account for sample structure in genome-wide association studies. GCTA: a tool for genome-wide complex trait analysis

Genome-wide association studies reveal candidate genes associated to bacteraemia caused by ST93-IV CA-MRSA

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To screen for potential association between gene con- tent and disease, genome-wide association studies (GWAS) can be performed by analysing single nucleo- tide polymorphisms (SNPs), and the accessory genes provided by WGS data. aureus bacteraemia isolates, no obvious associations in the number of virulence genes present in isolates from patients with and without S.

Single SNP- and pathway-based genomewide association studies for beak deformity in chickens using high-density 600K SNP arrays

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Genome-wide association and replication studies identify four variants associated with prostate cancer susceptibility. Analysing biological pathways in genome- wide association studies. Pathway-based genome-wide association studies for two meat production traits in simmental cattle. Pathway- based genome-wide association studies for plasma triglycerides in obese females and normal-weight controls. The SNP ratio test: pathway analysis of genome-wide association datasets..

LPG: A four-group probabilistic approach to leveraging pleiotropy in genome-wide association studies

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Genome-wide association studies (GWAS) have reported more than 51,000 single-nucleotide polymorphisms (SNPs) to be significantly associated with complex human phenotypes, including quantitative traits and complex diseases (Accession of the GWAS Catalog database [1]. Although the discovery of genetic risk variants has advanced our understanding of the genetic architecture of complex diseases/traits, these variants explain only a small proportion of phenotypic variance.

Heritability and genome-wide association analyses of fasting plasma glucose in Chinese adult twins

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A versatile gene-based test for genome-wide association studies

Genome-wide association analysis of nutrient traits in the oyster Crassostrea gigas: Genetic effect and interaction network

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Candidate gene polymorphisms and their association with glycogen content in the Pacific oyster Crassostrea gigas. Divergence and plasticity shape adaptive potential of the Pacific oyster. Linkage disequilibrium patterns of the human genome across populations.. Sequencing-based genome-wide association study in rice. Genome-wide association studies for complex traits:.

Genome-wide association screening and verification of potential genes associated with root architectural traits in maize (Zea mays L.) at multiple seedling stages

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In the 21st century, genome-wide association studies (GWAS) have been auspiciously used as a high-throughput tech- nique to analyzing the genetic basis for a variety of major crops [42], such as rice, sorghum, soybean, wheat, and maize essential for modern genetic studies [43].

A fast-linear mixed model for genome-wide haplotype association analysis: Application to agronomic traits in maize

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FaST linear mixed models for genome-wide association studies. Genome-wide efficient mixed-model analysis for association studies. Genome-wide barebones regression scan for mixed-model association analysis. Genome Wide Association Studies Using a New Nonparametric Model Reveal the Genetic Architecture of 17 Agronomic Traits in an Enlarged Maize Association Panel. Statistical properties of the number of recombination events in the history of a sample of DNA sequences..

Genome-wide association studies detects candidate genes for wool traits by resequencing in Chinese fine-wool sheep

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Genome-wide association studies detects candidate genes for wool traits by re-. Background: The quality and yield of wool determine the economic value of the fine-wool sheep. Therefore, discovering markers or genes relevant to wool traits is the cornerstone for the breeding of fine-wool sheep. A genome-wide association study (GWAS) was performed to detect the candidate genes for the eight wool traits..

Ancestry-specific associations identified in genome-wide combined-phenotype study of red blood cell traits emphasize benefits of diversity in genomics

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The new NHGRI-EBI catalog of published genome-wide association studies (GWAS catalog). Lin D-Y, Tao R, Kalsbeek WD, Zeng D, Gonzalez F, Fernández-Rhodes L, et al.

Genetic architecture of quantitative traits in beef cattle revealed by genome wide association studies of imputed whole genome sequence variants: I: Feed efficiency and component traits

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A whole genome sequence variant panel represents the ultimate DNA marker set to dissect genetic controls of complex traits via genetic analyses including genome wide association studies as whole genome sequence vari- ants contain all causative polymorphisms that contribute to the variation of the trait.

Genome-wide association study of agronomic traits in rice cultivated in temperate regions

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In this study we have analysed a collection of japonica varieties adapted to temperate regions to perform association studies with traits of high agronomical interest such as heading date, plant height, number of panicles, panicle length and number of grains per panicle.. Results: We have performed a genome wide association study using a panel of 1713 SNPs that, based on previous linkage disequilibrium estimations, provides a full coverage of the whole genome.

Genome-wide association study for salinity tolerance at the flowering stage in a panel of rice accessions from Thailand

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Genome-wide association studies of 14 agronomic traits in rice landraces. Genetic architecture of natural variation in rice chlorophyll content revealed by a genome-wide association study. Genome-wide association mapping for phenotypic plasticity in rice. Genetic architecture of aluminum tolerance in rice (Oryza sativa) determined through genome-wide association analysis and QTL mapping.

Genome wide association mapping for heat tolerance in sub-tropical maize

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Among these associations for agronomic traits, favorable associations were often Table 3 Summary of SNPs associated with different traits as detected by genome wide association studies (GWAS) under normal and heat stress conditions using 662 doubled haploid association panel. Heat stress GY .

Genome-wide association study of milk and reproductive traits in dual-purpose Xinjiang Brown cattle

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Genome-wide association studies. Ultimately, 12 SNPs passed the 5% threshold after a Bonferroni correction and were associated with six of the 10 study traits (Fig.

Linkage mapping and genome-wide association study reveals conservative QTL and candidate genes for Fusarium rot resistance in maize

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Genome-wide association studies in maize: praise and stargaze. Genome-wide association study and QTL mapping reveal genomic loci associated with Fusarium ear rot resistance in tropical maize germplasm. QTL for resistance to Fusarium ear rot in a multiparent advanced generation intercross (MAGIC) maize population. Genome-wide association study of resistance to ear rot by, in a tropical field maize and popcorn core collection.

Probe-based association analysis identifies several deletions associated with average daily gain in beef cattle

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Large-scale copy number polymorphism in the human genome. Novel origins of copy number variation in the dog genome. High density genome wide genotyping-by-sequencing and association identifies common and low frequency SNPs, and novel candidate genes influencing cow milk traits. Genomic predictions combining SNP markers and copy number variations in Nellore cattle. Variance component model to account for sample structure in genome-wide association studies