Whole-genome regression and prediction methods applied to plant and animal breeding

G de Los Campos, JM Hickey, R Pong-Wong… - Genetics, 2013 - academic.oup.com
Genomic-enabled prediction is becoming increasingly important in animal and plant
breeding and is also receiving attention in human genetics. Deriving accurate predictions of …

Genomic selection for forest tree improvement: Methods, achievements and perspectives

VG Lebedev, TN Lebedeva, AI Chernodubov… - Forests, 2020 - mdpi.com
The breeding of forest trees is only a few decades old, and is a much more complicated,
longer, and expensive endeavor than the breeding of agricultural crops. One breeding cycle …

Genomic selection in plant breeding: a comparison of models

N Heslot, HP Yang, ME Sorrells, JL Jannink - Crop science, 2012 - Wiley Online Library
Simulation and empirical studies of genomic selection (GS) show accuracies sufficient to
generate rapid genetic gains. However, with the increased popularity of GS approaches …

Genome-wide association mapping including phenotypes from relatives without genotypes

H Wang, I Misztal, I Aguilar, A Legarra… - Genetics Research, 2012 - cambridge.org
A common problem for genome-wide association analysis (GWAS) is lack of power for
detection of quantitative trait loci (QTLs) and precision for fine mapping. Here, we present a …

Priors in whole-genome regression: the Bayesian alphabet returns

D Gianola - Genetics, 2013 - academic.oup.com
Whole-genome enabled prediction of complex traits has received enormous attention in
animal and plant breeding and is making inroads into human and even Drosophila genetics …

Single Step, a general approach for genomic selection

A Legarra, OF Christensen, I Aguilar, I Misztal - Livestock Science, 2014 - Elsevier
Genomic evaluation methods assume that the reference population is genotyped and
phenotyped. This is most often false and the generation of pseudo-phenotypes is uncertain …

Genomic selection using regularized linear regression models: ridge regression, lasso, elastic net and their extensions

JO Ogutu, T Schulz-Streeck, HP Piepho - BMC proceedings, 2012 - Springer
Background Genomic selection (GS) is emerging as an efficient and cost-effective method
for estimating breeding values using molecular markers distributed over the entire genome …

On the additive and dominant variance and covariance of individuals within the genomic selection scope

ZG Vitezica, L Varona, A Legarra - Genetics, 2013 - academic.oup.com
Genomic evaluation models can fit additive and dominant SNP effects. Under quantitative
genetics theory, additive or “breeding” values of individuals are generated by substitution …

Accuracy of Genomic Selection Methods in a Standard Data Set of Loblolly Pine (Pinus taeda L.)

MFR Resende Jr, P Munoz, MDV Resende… - Genetics, 2012 - academic.oup.com
Genomic selection can increase genetic gain per generation through early selection.
Genomic selection is expected to be particularly valuable for traits that are costly to …

Overview of LASSO-related penalized regression methods for quantitative trait mapping and genomic selection

Z Li, MJ Sillanpää - Theoretical and applied genetics, 2012 - Springer
Quantitative trait loci (QTL)/association mapping aims at finding genomic loci associated
with the phenotypes, whereas genomic selection focuses on breeding value prediction …