ArticleHeredity2012
Prediction of genetic values of quantitative traits with epistatic effects in plant breeding populations.
Article in Heredity, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 40 papers.
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Who cites it
40 citing papers in PubMed.
- Genomic prediction of feed efficiency in boars by deep learning.G3 (Bethesda, Md.) · 2026Article
- Multifactor Analysis of a Genome-Wide Selection System inPlants (Basel, Switzerland) · 2025Article
- Leveraging hierarchical structures for genetic block interaction studies using the hierarchical transformer.medRxiv : the preprint server for health sciences · 2025Article
- Epistasis and pleiotropy-induced variation for plant breeding.Plant biotechnology journal · 2024Review
- Pleiotropy, epistasis and the genetic architecture of quantitative traits.Nature reviews. Genetics · 2024Review
- Article
- Genomic prediction with machine learning in sugarcane, a complex highly polyploid clonally propagated crop with substantial non-additive variation for key traits.The plant genome · 2023Article
- The use of weighted multiple linear regression to estimate QTL × QTL × QTL interaction effects of winter wheat (Triticum aestivum L.) doubled-haploid lines.Journal of applied genetics · 2023Article
- A Comparison of Methods to Estimate Additive-by-Additive-by-Additive of QTL×QTL×QTL Interaction Effects by Monte Carlo Simulation Studies.International journal of molecular sciences · 2023Article
- Whole-genome analysis of recombinant inbred rice lines reveals a quantitative trait locus on chromosome 3 with genotype-by-environment interaction effects.G3 (Bethesda, Md.) · 2023Article
- Genomic prediction using information across years with epistatic models and dimension reduction via haplotype blocks.PloS one · 2023Article
- NeuralLasso: Neural Networks Meet Lasso in Genomic Prediction.Frontiers in plant science · 2022Article
- MIDESP: Mutual Information-Based Detection of Epistatic SNP Pairs for Qualitative and Quantitative Phenotypes.Biology · 2021Article
- Accounting for epistasis improves genomic prediction of phenotypes with univariate and bivariate models across environments.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2021Article
- The utility of genomic prediction models in evolutionary genetics.Proceedings. Biological sciences · 2021Article
- RIL-StEp: epistasis analysis of rice recombinant inbred lines reveals candidate interacting genes that control seed hull color and leaf chlorophyll content.G3 (Bethesda, Md.) · 2021Article
- Characterization of effects of genetic variants via genome-scale metabolic modelling.Cellular and molecular life sciences : CMLS · 2021Review
- Multi-omics-based prediction of hybrid performance in canola.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2021Article
- Epistatic regulation of growth in Atlantic salmon revealed: a QTL study performed on the domesticated-wild interface.BMC genetics · 2020Article
- BWGS: A R package for genomic selection and its application to a wheat breeding programme.PloS one · 2020Article
Corrections and comments
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Though epistasis has long been postulated to have a critical role in genetic regulation of important pathways as well as provide a major source of variation in the process of speciation, the importance of epistasis for genomic selection in the context of plant breeding is still being debated. In this paper, we report the results on the prediction of genetic values with epistatic effects for 280 accessions in the Nebraska Wheat Breeding Program using adaptive mixed least absolute shrinkage and selection operator (LASSO). The development of adaptive mixed LASSO, originally designed for association mapping, for the context of genomic selection is reported. The results show that adaptive mixed LASSO can be successfully applied to the prediction of genetic values while incorporating both marker main effects and epistatic effects. Especially, the prediction accuracy is substantially improved by the inclusion of two-locus epistatic effects (more than onefold in some cases as measured by cross-validation correlation coefficient), which is observed for multiple traits and planting locations. This points to significant potential in using non-additive genetic effects for genomic selection in crop breeding practices.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.