Invited review: Genome-wide association analysis for quantitative traits in livestock–a selective review of statistical models and experimental designs

M Schmid, J Bennewitz - Archives Animal Breeding, 2017 - aab.copernicus.org
Quantitative or complex traits are controlled by many genes and environmental factors. Most
traits in livestock breeding are quantitative traits. Mapping genes and causative mutations …

Improved prediction of bacterial genotype-phenotype associations using interpretable pangenome-spanning regressions

JA Lees, TT Mai, M Galardini, NE Wheeler… - MBio, 2020 - Am Soc Microbiol
Discovery of genetic variants underlying bacterial phenotypes and the prediction of
phenotypes such as antibiotic resistance are fundamental tasks in bacterial genomics …

[HTML][HTML] Genome-wide association studies of mineral content in common bean

J Gunjača, K Carović-Stanko, B Lazarević… - Frontiers in plant …, 2021 - frontiersin.org
Micronutrient malnutrition is one of the main public health problems in many parts of the
world. This problem raises the attention of all valuable sources of micronutrients for the …

Genome wide association study of body weight and feed efficiency traits in a commercial broiler chicken population, a re-visitation

W Mebratie, H Reyer, K Wimmers, H Bovenhuis… - Scientific reports, 2019 - nature.com
Genome wide association study was conducted using a mixed linear model (MLM)
approach that accounted for family structure to identify single nucleotide polymorphisms …

A multiple-trait Bayesian Lasso for genome-enabled analysis and prediction of complex traits

D Gianola, RL Fernando - Genetics, 2020 - academic.oup.com
A multiple-trait Bayesian LASSO (MBL) for genome-based analysis and prediction of
quantitative traits is presented and applied to two real data sets. The data-generating model …

Genome-Wide Association Study for Milk Fatty Acids in Holstein Cattle Accounting for the DGAT1 Gene Effect

VAR Cruz, HR Oliveira, LF Brito, A Fleming, S Larmer… - Animals, 2019 - mdpi.com
Simple Summary Milk fat content and fatty acid composition are key traits for the dairy
industry, as they directly influence consumer acceptance of dairy products and are …

Fast algorithms for conducting large-scale GWAS of age-at-onset traits using cox mixed-effects models

L He, AM Kulminski - Genetics, 2020 - academic.oup.com
Age-at-onset traits are of paramount importance in studies of age-related diseases and
behavioral genetics. Cox mixed-effects models (CMEMs) are widely used when sample …

[HTML][HTML] Including phenotypic causal networks in genome-wide association studies using mixed effects structural equation models

M Momen, A Ayatollahi Mehrgardi… - Frontiers in …, 2018 - frontiersin.org
Network based statistical models accounting for putative causal relationships among
multiple phenotypes can be used to infer single-nucleotide polymorphism (SNP) effect which …

[HTML][HTML] Prediction of complex traits: robust alternatives to best linear unbiased prediction

D Gianola, A Cecchinato, H Naya, CC Schön - Frontiers in genetics, 2018 - frontiersin.org
A widely used method for prediction of complex traits in animal and plant breeding is
“genomic best linear unbiased prediction”(GBLUP). In a quantitative genetics setting, BLUP …

WhoGEM: an admixture-based prediction machine accurately predicts quantitative functional traits in plants

L Gentzbittel, C Ben, M Mazurier, MG Shin, T Lorenz… - Genome biology, 2019 - Springer
The explosive growth of genomic data provides an opportunity to make increased use of
sequence variations for phenotype prediction. We have developed a prediction machine for …