Machine learning methods and predictive ability metrics for genome-wide prediction of complex traits

O González-Recio, GJM Rosa, D Gianola - Livestock Science, 2014 - Elsevier
Genome-wide prediction of complex traits has become increasingly important in animal and
plant breeding, and is receiving increasing attention in human genetics. Most common …

[HTML][HTML] Accuracy of genome-enabled prediction in a dairy cattle population using different cross-validation layouts

MA Pérez-Cabal, AI Vazquez, D Gianola… - Frontiers in …, 2012 - frontiersin.org
The impact of extent of genetic relatedness on accuracy of genome-enabled predictions was
assessed using a dairy cattle population and alternative cross-validation (CV) strategies …

[HTML][HTML] Deep learning versus parametric and ensemble methods for genomic prediction of complex phenotypes

R Abdollahi-Arpanahi, D Gianola… - Genetics Selection …, 2020 - Springer
Background Transforming large amounts of genomic data into valuable knowledge for
predicting complex traits has been an important challenge for animal and plant breeders …

[HTML][HTML] Kernel-based whole-genome prediction of complex traits: a review

G Morota, D Gianola - Frontiers in genetics, 2014 - frontiersin.org
Prediction of genetic values has been a focus of applied quantitative genetics since the
beginning of the 20th century, with renewed interest following the advent of the era of whole …

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 …

[HTML][HTML] Genome-wide prediction of discrete traits using Bayesian regressions and machine learning

O González-Recio, S Forni - Genetics Selection Evolution, 2011 - Springer
Background Genomic selection has gained much attention and the main goal is to increase
the predictive accuracy and the genetic gain in livestock using dense marker information …

[HTML][HTML] Application of neural networks with back-propagation to genome-enabled prediction of complex traits in Holstein-Friesian and German Fleckvieh cattle

A Ehret, D Hochstuhl, D Gianola, G Thaller - Genetics Selection Evolution, 2015 - Springer
Background Recently, artificial neural networks (ANN) have been proposed as promising
machines for marker-based genomic predictions of complex traits in animal and plant …

Benchmarking parametric and machine learning models for genomic prediction of complex traits

CB Azodi, E Bolger, A McCarren… - G3: Genes …, 2019 - academic.oup.com
The usefulness of genomic prediction in crop and livestock breeding programs has
prompted efforts to develop new and improved genomic prediction algorithms, such as …

[HTML][HTML] Within-and across-breed genomic prediction using whole-genome sequence and single nucleotide polymorphism panels

OOM Iheshiulor, JA Woolliams, X Yu… - Genetics Selection …, 2016 - Springer
Background Currently, genomic prediction in cattle is largely based on panels of about 54k
single nucleotide polymorphisms (SNPs). However with the decreasing costs of and current …

[HTML][HTML] A stacking ensemble learning framework for genomic prediction

M Liang, T Chang, B An, X Duan, L Du, X Wang… - Frontiers in …, 2021 - frontiersin.org
Machine learning (ML) is perhaps the most useful tool for the interpretation of large genomic
datasets. However, the performance of a single machine learning method in genomic …