Joint Modeling of Genetics and Field Variation in Plant Breeding Trials Using Relationship and Different Spatial Methods: A Simulation Study of Accuracy and Bias

Modeling spatial data using local likelihood estimation and a Matérn to SAR translation

(2020) Ashton Wiens et al.   ENVIRONMETRICS

Adjusting for Spatial Effects in Genomic Prediction

(2020) Xiaojun Mao et al.   JOURNAL OF AGRICULTURAL BIOLOGICAL AND ENVIRONMENTAL STATISTICS

Modeling spatial trends and enhancing genetic selection: An approach to soybean seed composition breeding

(2020) Arthur Bernardeli et al.   CROP SCIENCE

Linear Variance, P-splines and Neighbour Differences for Spatial Adjustment in Field Trials: How are they Related?

(2020) Martin P. Boer et al.   JOURNAL OF AGRICULTURAL BIOLOGICAL AND ENVIRONMENTAL STATISTICS

Geographical Random Forests: A Spatial Extension of the Random Forest Algorithm to Address Spatial Heterogeneity in Remote Sensing and Population Modelling

(2019) Stefanos Georganos et al.   Geocarto International

Flexible modelling of spatial variation in agricultural field trials with the R package INLA

(2019) Maria Lie Selle et al.   THEORETICAL AND APPLIED GENETICS

bWGR: Bayesian whole-genome regression

(2019) Alencar Xavier et al.   BIOINFORMATICS

Population and quantitative genomic properties of the USDA soybean germplasm collection

(2018) Alencar Xavier et al.   Plant Genetic Resources-Characterization and Utilization

Population and quantitative genomic properties of the USDA soybean germplasm collection

(2018) Alencar Xavier et al.   Plant Genetic Resources-Characterization and Utilization

Random forest as a generic framework for predictive modeling of spatial and spatio-temporal variables

(2018) Tomislav Hengl et al.   PeerJ

Genetic Architecture of Phenomic-Enabled Canopy Coverage inGlycine max

(2017) Alencar Xavier et al.   GENETICS

Moving Beyond Managing Realized Genomic Relationship in Long-Term Genomic Selection

(2017) Herman De Beukelaer et al.   GENETICS

An Evaluation of Error Variance Bias in Spatial Designs

(2017) Emlyn R. Williams et al.   JOURNAL OF AGRICULTURAL BIOLOGICAL AND ENVIRONMENTAL STATISTICS

Improving Genomic Prediction in Cassava Field Experiments Using Spatial Analysis

(2017) Ani A. Elias et al.   G3-Genes Genomes Genetics

Multitrait, Random Regression, or Simple Repeatability Model in High-Throughput Phenotyping Data Improve Genomic Prediction for Wheat Grain Yield

(2017) Jin Sun et al.   Plant Genome

Genetic Architecture of Phenomic-Enabled Canopy Coverage inGlycine max

(2017) Alencar Xavier et al.   GENETICS

Moving Beyond Managing Realized Genomic Relationship in Long-Term Genomic Selection

(2017) Herman De Beukelaer et al.   GENETICS

Smoothing and high risk areas detection in space-time disease mapping: a comparison of P-splines, autoregressive, and moving average models

(2016) A. Adin et al.   STOCHASTIC ENVIRONMENTAL RESEARCH AND RISK ASSESSMENT

Walking through the statistical black boxes of plant breeding

(2016) Alencar Xavier et al.   THEORETICAL AND APPLIED GENETICS

Genomic assisted selection for enhancing line breeding: merging genomic and phenotypic selection in winter wheat breeding programs with preliminary yield trials

(2016) Sebastian Michel et al.   THEORETICAL AND APPLIED GENETICS

AlphaSim: Software for Breeding Program Simulation

(2016) Anne-Michelle Faux et al.   Plant Genome

Construction of a high-density mutant library in soybean and development of a mutant retrieval method using amplicon sequencing

(2015) Mai Tsuda et al.   BMC GENOMICS

Bayesian Spatial Modelling withR-INLA

(2015) Finn Lindgren et al.   Journal of Statistical Software

Multi-fidelity modelling via recursive co-kriging and Gaussian–Markov random fields

(2015) P. Perdikaris et al.   PROCEEDINGS OF THE ROYAL SOCIETY A-MATHEMATICAL PHYSICAL AND ENGINEERING SCIENCES

The importance of phenotypic data analysis for genomic prediction - a case study comparing different spatial models in rye

(2014) Angela-Maria Bernal-Vasquez et al.   BMC GENOMICS

Efficiency of augmented p-rep designs in multi-environmental trials

(2014) Jens Moehring et al.   THEORETICAL AND APPLIED GENETICS

A Comparison of Spatial Designs for Field Variety Trials

(2013) E. R. Williams et al.   AUSTRALIAN & NEW ZEALAND JOURNAL OF STATISTICS

Genomic selection allowing for marker-by-environment interaction

(2013) Torben Schulz-Streeck et al.   PLANT BREEDING

Increased Genomic Prediction Accuracy in Wheat Breeding Through Spatial Adjustment of Field Trial Data

(2013) Bettina Lado et al.   G3-Genes Genomes Genetics

OPTIMAL DESIGN FOR EARLY-GENERATION PLANT-BREEDING TRIALS WITH UNREPLICATED OR PARTIALLY REPLICATED TEST LINES

(2012) G. Peter Y. Clarke et al.   AUSTRALIAN & NEW ZEALAND JOURNAL OF STATISTICS

Spatial Corrections of Unreplicated Trials using a Two-dimensional Spline

(2012) K. R. Robbins et al.   CROP SCIENCE

Predicting Additive and Non-additive Genetic Effects from Trials Where Traits Are Affected by Interplot Competition

(2012) Colleen H. Hunt et al.   JOURNAL OF AGRICULTURAL BIOLOGICAL AND ENVIRONMENTAL STATISTICS

Comparisons of single-stage and two-stage approaches to genomic selection

(2012) Torben Schulz-Streeck et al.   THEORETICAL AND APPLIED GENETICS

Using the genomic relationship matrix to predict the accuracy of genomic selection

(2011) M.E. Goddard et al.   JOURNAL OF ANIMAL BREEDING AND GENETICS

An explicit link between Gaussian fields and Gaussian Markov random fields: the stochastic partial differential equation approach

(2011) Finn Lindgren et al.   JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES B-STATISTICAL METHODOLOGY

Augmented p-rep designs

(2010) Emlyn Williams et al.   BIOMETRICAL JOURNAL

Prediction of Genetic Values of Quantitative Traits in Plant Breeding Using Pedigree and Molecular Markers

(2010) J. Crossa et al.   GENETICS

Genome sequence of the palaeopolyploid soybean

(2010) Jeremy Schmutz et al.   NATURE

Arrangement of check plots in augmented block designs when spatial analysis is used

(2010) B. U. Müller et al.   PLANT BREEDING

Enhanced diagnostics for the spatial analysis of field trials

(2009) Katia T. Stefanova et al.   JOURNAL OF AGRICULTURAL BIOLOGICAL AND ENVIRONMENTAL STATISTICS

Approximate Bayesian inference for latent Gaussian models by using integrated nested Laplace approximations

(2009) Håvard Rue et al.   JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES B-STATISTICAL METHODOLOGY

Linear variance models for plant breeding trials

(2009) H. P. Piepho et al.   PLANT BREEDING

Fast and flexible simulation of DNA sequence data

(2008) G. K. Chen et al.   GENOME RESEARCH

Efficient Methods to Compute Genomic Predictions

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

Smoothing fertility trends in agricultural field experiments

(2008) Girma Taye et al.   STATISTICS

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

(2007) D. Habier et al.   GENETICS