A comparison of methods for training population optimization in genomic selection

Training population optimization for genomic selection improves the predictive ability of a costly measure in bread wheat, the gliadin to glutenin ratio

(2022) Pierre Lemeunier et al.   EUPHYTICA

Optimization of training sets for genomic prediction of early-stage single crosses in maize

(2021) Dnyaneshwar C. Kadam et al.   THEORETICAL AND APPLIED GENETICS

Bayesian Optimization Approaches for Identifying the Best Genotype from a Candidate Population

(2021) Shin-Fu Tsai et al.   JOURNAL OF AGRICULTURAL BIOLOGICAL AND ENVIRONMENTAL STATISTICS

TrainSel: An R Package for Selection of Training Populations

(2021) Deniz Akdemir et al.   Frontiers in Genetics

Genomic prediction and training set optimization in a structured Mediterranean oat population

(2021) Simon Rio et al.   THEORETICAL AND APPLIED GENETICS

Training Set Optimization for Sparse Phenotyping in Genomic Selection: A Conceptual Overview

(2021) Julio Isidro y Sánchez et al.   Frontiers in Plant Science

Genomic Prediction of Maize Micro‐Phenotypes Provides Insights for Optimizing Selection and Mining Diversity

(2020) Xiaoqing Yu et al.   PLANT BIOTECHNOLOGY JOURNAL

Economical optimization of a breeding scheme by selective phenotyping of the calibration set in a multi-trait context: application to bread making quality

(2020) S. Ben-Sadoun et al.   THEORETICAL AND APPLIED GENETICS

The accuracy of different strategies for building training sets for genomic predictions in soybean segregating populations

(2020) Leandro de Freitas Mendonça et al.   CROP SCIENCE

Optimization of Selective Phenotyping and Population Design for Genomic Prediction

(2020) Nicolas Heslot et al.   JOURNAL OF AGRICULTURAL BIOLOGICAL AND ENVIRONMENTAL STATISTICS

Maximizing efficiency of genomic selection in CIMMYT’s tropical maize breeding program

(2020) Sikiru Adeniyi Atanda et al.   THEORETICAL AND APPLIED GENETICS

Genomic prediction of fruit texture and training population optimization towards the application of genomic selection in apple

(2020) Morgane Roth et al.   Horticulture Research

Optimal Designs for Genomic Selection in Hybrid Crops

(2019) Tingting Guo et al.   Molecular Plant

Factors Affecting the Accuracy of Genomic Selection for Agricultural Economic Traits in Maize, Cattle, and Pig Populations

(2019) Haohao Zhang et al.   Frontiers in Genetics

Design of training populations for selective phenotyping in genomic prediction

(2019) Deniz Akdemir et al.   Scientific Reports

Training population selection and use of fixed effects to optimize genomic predictions in a historical USA winter wheat panel

(2019) J. Martin Sarinelli et al.   THEORETICAL AND APPLIED GENETICS

Opportunities for genomic selection in American mink: A simulation study

(2019) Karim Karimi et al.   PLoS One

Training set optimization of genomic prediction by means of EthAcc

(2019) Brigitte Mangin et al.   PLoS One

Training set determination for genomic selection

(2019) Jen-Hsiang Ou et al.   THEORETICAL AND APPLIED GENETICS

Extensive Genetic Diversity is Present within North American Switchgrass Germplasm

(2018) Joseph Evans et al.   Plant Genome

Efficiency of multi-trait, indirect, and trait-assisted genomic selection for improvement of biomass sorghum

(2017) Samuel B. Fernandes et al.   THEORETICAL AND APPLIED GENETICS

Predicting genomic selection efficiency to optimize calibration set and to assess prediction accuracy in highly structured populations

(2017) R. Rincent et al.   THEORETICAL AND APPLIED GENETICS

Genomic Selection in Plant Breeding: Methods, Models, and Perspectives

(2017) José Crossa et al.   TRENDS IN PLANT SCIENCE

An Upper Bound for Accuracy of Prediction Using GBLUP

(2016) Emre Karaman et al.   PLoS One

Adding Genetically Distant Individuals to Training Populations Reduces Genomic Prediction Accuracy in Barley

(2015) Aaron J. Lorenz et al.   CROP SCIENCE

Genomic Selection and Association Mapping in Rice (Oryza sativa): Effect of Trait Genetic Architecture, Training Population Composition, Marker Number and Statistical Model on Accuracy of Rice Genomic Selection in Elite, Tropical Rice Breeding Lines

(2015) Jennifer Spindel et al.   PLoS Genetics

Genomic Prediction in Pea: Effect of Marker Density and Training Population Size and Composition on Prediction Accuracy

(2015) Nadim Tayeh et al.   Frontiers in Plant Science

Genomic selection accuracies within and between environments and small breeding groups in white spruce

(2014) Jean Beaulieu et al.   BMC GENOMICS

Evaluation of Genomic Selection Training Population Designs and Genotyping Strategies in Plant Breeding Programs Using Simulation

(2014) John M. Hickey et al.   CROP SCIENCE

Genome-Wide Regression and Prediction with the BGLR Statistical Package

(2014) P. Perez et al.   GENETICS

Insights into the Maize Pan-Genome and Pan-Transcriptome

(2014) C. N. Hirsch et al.   PLANT CELL

Accelerating the Switchgrass (Panicum virgatum L.) Breeding Cycle Using Genomic Selection Approaches

(2014) Alexander E. Lipka et al.   PLoS One

The impact of population structure on genomic prediction in stratified populations

(2014) Zhigang Guo et al.   THEORETICAL AND APPLIED GENETICS

Training set optimization under population structure in genomic selection

(2014) Julio Isidro et al.   THEORETICAL AND APPLIED GENETICS

Maximizing the Reliability of Genomic Selection by Optimizing the Calibration Set of Reference Individuals: Comparison of Methods in Two Diverse Groups of Maize Inbreds (Zea mays L.)

(2012) R. Rincent et al.   GENETICS

Reliability of direct genomic values for animals with different relationships within and to the reference population

(2011) M. Pszczola et al.   JOURNAL OF DAIRY SCIENCE

Genome-wide association mapping reveals a rich genetic architecture of complex traits in Oryza sativa

(2011) Keyan Zhao et al.   Nature Communications

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

(2011) Jeffrey B. Endelman   Plant Genome

Factors Affecting Accuracy From Genomic Selection in Populations Derived From Multiple Inbred Lines: A Barley Case Study

(2009) S. Zhong et al.   GENETICS

Reproducing kernel Hilbert spaces regression: A general framework for genetic evaluation1

(2009) G. de los Campos et al.   JOURNAL OF ANIMAL SCIENCE

Reproducing Kernel Hilbert Spaces Regression Methods for Genomic Assisted Prediction of Quantitative Traits

(2008) D. Gianola et al.   GENETICS

Efficient Methods to Compute Genomic Predictions

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