Genomic prediction in animals and plants: simulation of data, validation, reporting, and benchmarking
HD Daetwyler, MPL Calus, R Pong-Wong… - Genetics, 2013 - academic.oup.com
The genomic prediction of phenotypes and breeding values in animals and plants has
developed rapidly into its own research field. Results of genomic prediction studies are often …
developed rapidly into its own research field. Results of genomic prediction studies are often …
[PDF][PDF] Current status of genomic evaluation
Early application of genomic selection relied on SNP estimation with phenotypes or de-
regressed proofs (DRP). Chips of 50k SNP seemed sufficient for an accurate estimation of …
regressed proofs (DRP). Chips of 50k SNP seemed sufficient for an accurate estimation of …
[HTML][HTML] Semi-parametric estimates of population accuracy and bias of predictions of breeding values and future phenotypes using the LR method
A Legarra, A Reverter - Genetics Selection Evolution, 2018 - Springer
Background Cross-validation tools are used increasingly to validate and compare genetic
evaluation methods but analytical properties of cross-validation methods are rarely …
evaluation methods but analytical properties of cross-validation methods are rarely …
Genetic evaluation using single-step genomic best linear unbiased predictor in American Angus
Predictive ability of genomic EBV when using single-step genomic BLUP (ssGBLUP) in
Angus cattle was investigated. Over 6 million records were available on birth weight (BiW) …
Angus cattle was investigated. Over 6 million records were available on birth weight (BiW) …
[HTML][HTML] Bias and accuracy of dairy sheep evaluations using BLUP and SSGBLUP with metafounders and unknown parent groups
FL Macedo, OF Christensen, JM Astruc… - Genetics Selection …, 2020 - Springer
Background Bias has been reported in genetic or genomic evaluations of several species.
Common biases are systematic differences between averages of estimated and true …
Common biases are systematic differences between averages of estimated and true …
Inexpensive computation of the inverse of the genomic relationship matrix in populations with small effective population size
I Misztal - Genetics, 2016 - academic.oup.com
Many computations with SNP data including genomic evaluation, parameter estimation, and
genome-wide association studies use an inverse of the genomic relationship matrix. The …
genome-wide association studies use an inverse of the genomic relationship matrix. The …
The dimensionality of genomic information and its effect on genomic prediction
The genomic relationship matrix (GRM) can be inverted by the algorithm for proven and
young (APY) based on recursion on a random subset of animals. While a regular inverse …
young (APY) based on recursion on a random subset of animals. While a regular inverse …
Genetic gain and inbreeding from genomic selection in a simulated commercial breeding program for perennial ryegrass
Genomic selection (GS) provides an attractive option for accelerating genetic gain in
perennial ryegrass (Lolium perenne L.) improvement given the long cycle times of most …
perennial ryegrass (Lolium perenne L.) improvement given the long cycle times of most …
[HTML][HTML] Accuracy of estimated breeding values with genomic information on males, females, or both: an example on broiler chicken
Background As more and more genotypes become available, accuracy of genomic
evaluations can potentially increase. However, the impact of genotype data on accuracy …
evaluations can potentially increase. However, the impact of genotype data on accuracy …
[HTML][HTML] Predicting the accuracy of genomic predictions
Background Mathematical models are needed for the design of breeding programs using
genomic prediction. While deterministic models for selection on pedigree-based estimates of …
genomic prediction. While deterministic models for selection on pedigree-based estimates of …