Fully efficient, two-stage analysis of multi-environment trials with directional dominance and multi-trait genomic selection

Multitrait Bayesian shrinkage and variable selection models with the BGLR-R package

(2022) Paulino Pérez-Rodríguez et al.   GENETICS

The Importance of Dominance and Genotype-by-Environment Interactions on Grain Yield Variation in a Large-Scale Public Cooperative Maize Experiment

(2021) Anna R Rogers et al.   G3-Genes Genomes Genetics

Improved genomic prediction of clonal performance in sugarcane by exploiting non-additive genetic effects

(2021) Seema Yadav et al.   THEORETICAL AND APPLIED GENETICS

Genomic prediction with allele dosage information in highly polyploid species

(2021) Lorena G. Batista et al.   THEORETICAL AND APPLIED GENETICS

An R Package for Bayesian Analysis of Multi-environment and Multi-trait Multi-environment Data for Genome-Gased Prediction

(2019) Osval A. Montesinos-López et al.   G3-Genes Genomes Genetics

FitTetra 2.0 – improved genotype calling for tetraploids with multiple population and parental data support

(2019) Konrad Zych et al.   BMC BIOINFORMATICS

Genetic Variance Partitioning and Genome-Wide Prediction with Allele Dosage Information in Autotetraploid Potato

(2018) Jeffrey B. Endelman et al.   GENETICS

Genetic Variance Partitioning and Genome-Wide Prediction with Allele Dosage Information in Autotetraploid Potato

(2018) Jeffrey B. Endelman et al.   GENETICS

Correcting for spatial heterogeneity in plant breeding experiments with P-splines

(2018) María Xosé Rodríguez-Álvarez et al.   Spatial Statistics

Non-additive Effects in Genomic Selection

(2018) Luis Varona et al.   Frontiers in Genetics

Improving Response in Genomic Selection with a Population-Based Selection Strategy: Optimal Population Value Selection

(2017) Matthew Goiffon et al.   GENETICS

Including nonadditive genetic effects in mating programs to maximize dairy farm profitability

(2017) H. Aliloo et al.   JOURNAL OF DAIRY SCIENCE

Improving Response in Genomic Selection with a Population-Based Selection Strategy: Optimal Population Value Selection

(2017) Matthew Goiffon et al.   GENETICS

Comparing estimates of genetic variance across different relationship models

(2016) Andres Legarra   THEORETICAL POPULATION BIOLOGY

Canopy Temperature and Vegetation Indices from High-Throughput Phenotyping Improve Accuracy of Pedigree and Genomic Selection for Grain Yield in Wheat

(2016) Jessica Rutkoski et al.   G3-Genes Genomes Genetics

AGHmatrix: R Package to Construct Relationship Matrices for Autotetraploid and Diploid Species: A Blueberry Example

(2016) Rodrigo R. Amadeu et al.   Plant Genome

Efficient Breeding by Genomic Mating

(2016) Deniz Akdemir et al.   Frontiers in Genetics

Genome-Assisted Prediction of Quantitative Traits Using the R Package sommer

(2016) Giovanny Covarrubias-Pazaran   PLoS One

Development and analysis of a 20K SNP array for potato (Solanum tuberosum): an insight into the breeding history

(2015) Peter G. Vos et al.   THEORETICAL AND APPLIED GENETICS

Genomic Heritability: What Is It?

(2015) Gustavo de los Campos et al.   PLoS Genetics

Rapid screening for phenotype-genotype associations by linear transformations of genomic evaluations

(2014) Jose L Gualdrón Duarte et al.   BMC BIOINFORMATICS

Genome-Wide Regression and Prediction with the BGLR Statistical Package

(2014) P. Perez et al.   GENETICS

On the Additive and Dominant Variance and Covariance of Individuals Within the Genomic Selection Scope

(2013) Z. G. Vitezica et al.   GENETICS

Naturally occurring allele diversity allows potato cultivation in northern latitudes

(2013) Bjorn Kloosterman et al.   NATURE

Optimizing the allocation of resources for genomic selection in one breeding cycle

(2013) Christian Riedelsheimer et al.   THEORETICAL AND APPLIED GENETICS

synbreed: a framework for the analysis of genomic prediction data using R

(2012) Valentin Wimmer et al.   BIOINFORMATICS

GAPIT: genome association and prediction integrated tool

(2012) Alexander E. Lipka et al.   BIOINFORMATICS

A stage-wise approach for the analysis of multi-environment trials

(2012) Hans-Peter Piepho et al.   BIOMETRICAL JOURNAL

Shrinkage Estimation of the Realized Relationship Matrix

(2012) Jeffrey B. Endelman et al.   G3-Genes Genomes Genetics

Genomic Selection in Wheat Breeding using Genotyping-by-Sequencing

(2012) Jesse Poland et al.   Plant Genome

Ridge Regression and Other Kernels for Genomic Selection with R Package rrBLUP

(2011) Jeffrey B. Endelman   Plant Genome

Analysis of yield and oil from a series of canola breeding trials. Part II. Exploring variety by environment interaction using factor analysisThis article is one of a selection of papers from the conference “Exploiting Genome-wide Association in Oilseed Brassicas: a model for genetic improvement of major OECD crops for sustainable farming”.

(2010) B.R. Cullis et al.   GENOME

A relationship matrix including full pedigree and genomic information

(2009) A. Legarra et al.   JOURNAL OF DAIRY SCIENCE

On multiple-testing correction in genome-wide association studies

(2008) Valentina Moskvina et al.   GENETIC EPIDEMIOLOGY

Efficient Methods to Compute Genomic Predictions

(2008) P.M. VanRaden   JOURNAL OF DAIRY SCIENCE

Accuracy of Predicting the Genetic Risk of Disease Using a Genome-Wide Approach

(2008) Hans D. Daetwyler et al.   PLoS One

The impact of genetic relationship information on genome-assisted breeding values

(2007) D. Habier et al.   GENETICS