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A dimensionality-reduction genomic prediction method without direct inverse of the genomic relationship matrix for large genomic data
Key messageA new genomic prediction method (RHPP) was developed via combining randomized Haseman–Elston regression (RHE-reg), PCR based on genomic...
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Genomic Prediction of Complex Traits Methods and Protocols
This volume explores the conceptual framework and the practical issues related to genomic prediction of complex traits in human medicine and in...
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Genomic analysis and prediction of genomic values for distichiasis in Staffordshire bull terriers
BackgroundDistichiasis is a condition characterized by aberrant hairs along the eyelid margins. The symptoms are usually mild but can lead to...
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Accuracy of genomic prediction using multiple Atlantic salmon populations
BackgroundThe accuracy of genomic prediction is partly determined by the size of the reference population. In Atlantic salmon breeding programs, four...
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Imputation strategies for genomic prediction using nanopore sequencing
BackgroundGenomic prediction describes the use of SNP genotypes to predict complex traits and has been widely applied in humans and agricultural...
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Improved genomic prediction using machine learning with Variational Bayesian sparsity
BackgroundGenomic prediction has become a powerful modelling tool for assessing line performance in plant and livestock breeding programmes. Among...
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Bayesian discrete lognormal regression model for genomic prediction
Key messageGenomic prediction models for quantitative traits assume continuous and normally distributed phenotypes. In this research, we proposed a...
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Optimization of Multi-Generation Multi-location Genomic Prediction Models for Recurrent Genomic Selection in an Upland Rice Population
Genomic selection is a worthy breeding method to improve genetic gain in recurrent selection breeding schemes. The integration of multi-generation...
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Metabolomic-genomic prediction can improve prediction accuracy of breeding values for malting quality traits in barley
BackgroundMetabolomics measures an intermediate stage between genotype and phenotype, and may therefore be useful for breeding. Our objectives were...
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Sparse Phenoty** and Haplotype-Based Models for Genomic Prediction in Rice
The multi-environment genomic selection enables plant breeders to select varieties resilient to diverse environments or particularly adapted to...
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Importance of genetic architecture in marker selection decisions for genomic prediction
Key messageWe demonstrate potential for improved multi-environment genomic prediction accuracy using structural variant markers. However, the degree...
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Exploring the potential of incremental feature selection to improve genomic prediction accuracy
BackgroundThe ever-increasing availability of high-density genomic markers in the form of single nucleotide polymorphisms (SNPs) enables genomic...
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Dimensionality of genomic information and its impact on genome-wide associations and variant selection for genomic prediction: a simulation study
BackgroundIdentifying true positive variants in genome-wide associations (GWA) depends on several factors, including the number of genotyped...
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Effects of marker density on genomic prediction for yield traits in sweet corn
By accounting for many traits, phenoty** sweet corn is a costly practice, making complementary strategies necessary. Thus, predictive methods...
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MSXFGP: combining improved sparrow search algorithm with XGBoost for enhanced genomic prediction
BackgroundWith the significant reduction in the cost of high-throughput sequencing technology, genomic selection technology has been rapidly...
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Using residual regressions to quantify and map signal leakage in genomic prediction
BackgroundMost genomic prediction applications in animal breeding use genotypes with tens of thousands of single nucleotide polymorphisms (SNPs)....
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Computation Tools for Prediction and Analysis of Genomic Islands
The genomic island (GI) is a discrete cluster of genes in prokaryotic genomes acquired through horizontal gene transfer (HGT). GI includes genes...
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Factor analysis applied in genomic prediction considering different density marker panels in rice
The study objective was to evaluate the application of factor analysis (FA) on genomic prediction considering different density marker panels. The FA...
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Genomic dissection of additive and non-additive genetic effects and genomic prediction in an open-pollinated family test of Japanese larch
Genomic dissection of genetic effects on desirable traits and the subsequent use of genomic selection hold great promise for accelerating the rate of...
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Multi-omics assists genomic prediction of maize yield with machine learning approaches
With the improvement of high-throughput technologies in recent years, large multi-dimensional plant omics data have been produced, and...
