ArticleHeredity2018
Genomic selection using principal component regression.
Article in Heredity, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed.
- Genomic selection for seed yield enhances flax breeding efficiency.Molecular breeding : new strategies in plant improvement · 2026Article
- MeNet: A mixed-effect deep neural network for multi-environment genomic prediction of agronomic traits.Plant communications · 2026Article
- Accounting for population structure in genomic prediction of strawberry sweetness at a global scale.Scientific reports · 2025Article
- Spatial transcriptomics at the brain-electrode interface in rat motor cortex and the relationship to recording quality.Journal of neural engineering · 2024Article
- Label-free morpho-molecular phenotyping of living cancer cells by combined Raman spectroscopy and phase tomography.Communications biology · 2024Article
- A dimensionality-reduction genomic prediction method without direct inverse of the genomic relationship matrix for large genomic data.Plant cell reports · 2023Article
- Optimization and prediction of the cotton fabric dyeing process using Taguchi design-integrated machine learning approach.Scientific reports · 2023Article
- Haplotype-tagged SNPs improve genomic prediction accuracy for Fusarium head blight resistance and yield-related traits in wheat.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2023Article
- Establishment and Validation of Fourier Transform Infrared Spectroscopy (FT-MIR) Methodology for the Detection of Linoleic Acid in Buffalo Milk.Foods (Basel, Switzerland) · 2023Article
- Article
- Comparison of artificial intelligence algorithms and their ranking for the prediction of genetic merit in sheep.Scientific reports · 2022Article
- PCA outperforms popular hidden variable inference methods for molecular QTL mapping.Genome biology · 2022Article
- Genomic Prediction: Progress and Perspectives for Rice Improvement.Methods in molecular biology (Clifton, N.J.) · 2022Review
- Achievements and Challenges of Genomics-Assisted Breeding in Forest Trees: From Marker-Assisted Selection to Genome Editing.International journal of molecular sciences · 2021Review
- Genomic Predictions Using Low-Density SNP Markers, Pedigree and GWAS Information: A Case Study with the Non-Model SpeciesPlants (Basel, Switzerland) · 2020Article
- Article
- Whole fungal elicitors boost paclitaxel biosynthesis induction in Corylus avellana cell culture.PloS one · 2020Article
Corrections and comments
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Many statistical methods are available for genomic selection (GS) through which genetic values of quantitative traits are predicted for plants and animals using whole-genome SNP data. A large number of predictors with much fewer subjects become a major computational challenge in GS. Principal components regression (PCR) and its derivative, i.e., partial least squares regression (PLSR), provide a solution through dimensionality reduction. In this study, we show that PCR can perform better than PLSR in cross validation. PCR often requires extracting more components to achieve the maximum predictive ability than PLSR and thus may be associated with a higher computational cost. However, application of the HAT method (a strategy of describing the relationship between the fitted and observed response variables with a hat matrix) to PCR circumvents conventional cross validation in testing predictive ability, resulting in substantially improved computational efficiency over PLSR where cross validation is mandatory. Advantages of PCR over PLSR are illustrated with a simulated trait of a hypothetical population and four agronomical traits of a rice population. The benefit of using PCR in genomic selection is further demonstrated in an effort to predict 1000 metabolomic traits and 24,973 transcriptomic traits in the same rice population.
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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.