ArticleGenetics2021
Genetic evaluation including intermediate omics features.
Article in Genetics, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 41 papers.
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Who cites it
41 citing papers in PubMed, 92 citations in OpenAlex.
- A note on a generalized single step theory for any number of hierarchical genomic matrices.Genetics, selection, evolution : GSE · 2026Article
- Modest contribution of metabolomic data to genomic prediction of breeding values for feed conversion ratio in pigs.Genetics, selection, evolution : GSE · 2026Article
- Prediction of disease resilience of pigs using multi-omics data.Journal of animal science and biotechnology · 2026Article
- Insights into pig resilience: the Microbiome-genetic connection.Porcine health management · 2026Review
- Integration of proxy intermediate omics traits into a nonlinear two-step model for accurate phenotypic prediction.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Microbial and Genomic Information Synergistically Contribute to Predicting Swine Performance Across Production Systems.Journal of animal breeding and genetics = Zeitschrift fur Tierzuchtung und Zuchtungsbiologie · 2026Article
- FSBLUP: a novel strategy of fusion similarity matrix construction via optimally integrating intermediate omics data to enhance genomic prediction.Genome biology · 2026Article
- The hologenome concept and its implications for animal breeding in the multi-omics Era.Genetics and molecular biology · 2026Article
- Reciprocal BLUP: A Predictability-Guided Multi-Omics Framework for Plant Phenotype Prediction.Plants (Basel, Switzerland) · 2025Article
- Incorporating transcriptomic data into genomic prediction models to improve the prediction accuracy of phenotypes of efficiency traits.Genetics, selection, evolution : GSE · 2025Article
- A Recursive Model Approach to Include Epigenetic Effects in Genetic Evaluations Using Simulated DNA Methylation Effects.Journal of animal breeding and genetics = Zeitschrift fur Tierzuchtung und Zuchtungsbiologie · 2025Article
- Improving genomic prediction accuracy for methane emission and feed efficiency in sheep: integrating rumen microbial PCA with host genomic variation using neural network GBLUP (NN-GBLUP).Genetics, selection, evolution : GSE · 2025Article
- GCRP: Integrated Global Chicken Reference Panel from 11,951 Chicken Genomes.Genomics, proteomics & bioinformatics · 2025Article
- Metabolomic-genomic prediction realizes small increases in accuracy of estimated breeding values for daily gain in pigs.Genetics, selection, evolution : GSE · 2025Article
- Comparison of genomic prediction accuracies in dairy cattle lactation traits using five classes of functional variants versus generic SNP.Genetics, selection, evolution : GSE · 2025Article
- Genomic prediction for yield and malting traits in barley using metabolomic and near-infrared spectra.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- The gut microbiota as a predictor of feed efficiency and feeding behavior in Iberian pigs.Journal of animal science · 2025Article
- Fecal microbiota-based investigations of nitrogen utilization efficiency and related traits in a Landrace × Piétrain crossbred population.Journal of animal science · 2025Article
- Integrating Gene Expression Data into Single-Step Method (ssBLUP) Improves Genomic Prediction Accuracy for Complex Traits of Duroc × Erhualian FCurrent issues in molecular biology · 2024Article
- A review of multimodal deep learning methods for genomic-enabled prediction in plant breeding.Genetics · 2024Article
Corrections and comments
- Erratum issued
Authors and funding
4 authors at 3 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In animal and plant breeding and genetics, there has been an increasing interest in intermediate omics traits, such as metabolomics and transcriptomics, which mediate the effect of genetics on the phenotype of interest. For inclusion of such intermediate traits into a genetic evaluation system, there is a need for a statistical model that integrates phenotypes, genotypes, pedigree, and omics traits, and a need for associated computational methods that provide estimated breeding values. In this paper, a joint model for phenotypes and omics data is presented, and a formula for the breeding values on individuals is derived. For complete omics data, three equivalent methods for best linear unbiased prediction of breeding values are presented. In all three cases, this requires solving two mixed model equation systems. Estimation of parameters using restricted maximum likelihood is also presented. For incomplete omics data, extensions of two of these methods are presented, where in both cases, the extension consists of extending an omics-related similarity matrix to incorporate individuals without omics data. The methods are illustrated using a simulated data set.
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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 Socratic graph.