How to perform meaningful estimates of genetic effects
Although the genotype-phenotype map plays a central role both in Quantitative and
Evolutionary Genetics, the formalization of a completely general and satisfactory model of …
Evolutionary Genetics, the formalization of a completely general and satisfactory model of …
Genomic prediction using individual-level data and summary statistics from multiple populations
This study presents a method for genomic prediction that uses individual-level data and
summary statistics from multiple populations. Genome-wide markers are nowadays widely …
summary statistics from multiple populations. Genome-wide markers are nowadays widely …
Modeling additive and non-additive effects in a hybrid population using genome-wide genotyping: prediction accuracy implications
JM Bouvet, G Makouanzi, D Cros, PH Vigneron - Heredity, 2016 - nature.com
Hybrids are broadly used in plant breeding and accurate estimation of variance components
is crucial for optimizing genetic gain. Genome-wide information may be used to explore …
is crucial for optimizing genetic gain. Genome-wide information may be used to explore …
Detecting epistasis with the marginal epistasis test in genetic mapping studies of quantitative traits
Epistasis, commonly defined as the interaction between multiple genes, is an important
genetic component underlying phenotypic variation. Many statistical methods have been …
genetic component underlying phenotypic variation. Many statistical methods have been …
Genotype imputation for the prediction of genomic breeding values in non-genotyped and low-density genotyped individuals
MA Cleveland, JM Hickey, BP Kinghorn - BMC proceedings, 2011 - Springer
Background There is wide interest in calculating genomic breeding values (GEBVs) in
livestock using dense, genome-wide SNP data. The general framework for genomic …
livestock using dense, genome-wide SNP data. The general framework for genomic …
Using machine learning and partial dependence to evaluate robustness of best linear unbiased prediction (BLUP) for phenotypic values
P Bhandari, TG Lee - Journal of Applied Genetics, 2024 - Springer
Best linear unbiased prediction (BLUP) is widely used in plant research to address
experimental variation. For phenotypic values, BLUP accuracy is largely dependent on …
experimental variation. For phenotypic values, BLUP accuracy is largely dependent on …
Understanding the potential bias of variance components estimators when using genomic models
BCD Cuyabano, AC Sørensen, P Sørensen - Genetics Selection Evolution, 2018 - Springer
Background Genomic models that link phenotypes to dense genotype information are
increasingly being used for infering variance parameters in genetics studies. The variance …
increasingly being used for infering variance parameters in genetics studies. The variance …
Genomic value prediction for quantitative traits under the epistatic model
Background Most quantitative traits are controlled by multiple quantitative trait loci (QTL).
The contribution of each locus may be negligible but the collective contribution of all loci is …
The contribution of each locus may be negligible but the collective contribution of all loci is …
[PDF][PDF] Understanding genomic evaluations from various evaluation methods and GMACE
Genomic predictions (GEBVs) are often validated by predicting later deregressed
conventional evaluations or daughter yield deviations (dEBVs or DYDs) from earlier GEBVs …
conventional evaluations or daughter yield deviations (dEBVs or DYDs) from earlier GEBVs …
An alternative covariance estimator to investigate genetic heterogeneity in populations
N Heslot, JL Jannink - Genetics Selection Evolution, 2015 - Springer
Background For genomic prediction and genome-wide association studies (GWAS) using
mixed models, covariance between individuals is estimated using molecular markers. Based …
mixed models, covariance between individuals is estimated using molecular markers. Based …