Page 355 - Linear Models for the Prediction of Animal Breeding Values 3rd Edition

genetic evaluation SNPs see single nucleotide
additive effects 1 polymorphisms (SNPs)
breeding value prediction see breeding young animals 178
value prediction Gibbs sampling
description 1 Gibbs sampler 261
dominance and epistasis 1–2 joint posterior distribution 260
pedigree 9–10 MCMC 260
phenotypic observation 1 multivariate animal model
prediction, breeding value 2 see multivariate animal model
progeny records, breeding value univariate animal model see univariate
prediction 6–8 animal model
selection index see selection index
genetic markers
additive genetic merit, MQTL 167–169 herd–test–day (HTD) effect 132
BLUP procedure 156 herd–year–season (HYS) 80
chromosomes identification 156
covariance matrix calculation 157–160
definition 156–157 IGE see indirect genetic effects (IGE)
DNA microsatellites 156 inbreeding calculation, L matrix
prediction, breeding values 165–166 calculation 306–307
QTL bracketed, markers modification 308–310
see quantitative trait loci (QTL) pedigree 307–308
total additive genetic merit indirect genetic effects (IGE) 121
prediction 169–171 iteration, mixed model equations
genetic parameters animal model with groups
eigenvalues 254 data preparation 282–283
environmental effect 253 description 282
estimation, animal model 255–257 iterative stage 283–284
measures, daughters of sire 253–254 animal model without groups
prediction, breeding values 251 ARHS 280
scaled contrast 255 convergence criterion 281
univariate sire model 251 pedigree file 278–279
WWG, beef calves 252–253, 257–259 predicting breeding 278
genomic breeding values (GEBV) description 271–272
Bayesian methods 193–201 Gauss–Seidel iteration 275–276
chromosome segments 178 genetic maternal effects 277
coding and scaling genotypes 178–179 Jacobi iteration see Jacobi iteration
cross-validation and genomic progeny 278
reliabilities 202 random animal effect 276
DGV and GEBV 177 reduced animal model, maternal effects
fixed effect model, SNP 179–182 see reduced animal model
genomic selection 178 (RAM), maternal effects
linear model 178
mixed linear model
polygenic effects 188–190 Jacobi iteration
SNP effects 182–188 convergence criterion 272, 273
MME 202 diagonal element 272–273
QTL 177 random animal effect 273
reference and selection 182 sex effect 274
selection of animals 177 simultaneous equations 272
single-step approach 190–193 joint and full conditional distributions
SNP-BLUP model 203 Gibbs sampling 263

Index 339