Evaluation of Antedependence Model Performance and Genomic Prediction for Growth in Danish Pigs

TY - CONF

T1 - Evaluation of Antedependence Model Performance and Genomic Prediction for Growth in Danish Pigs

AU - Wang, Lei

AU - Edwards, David

AU - Janss, Luc

N1 - Conference code: 10th

PY - 2014/8/17

Y1 - 2014/8/17

N2 - The widely used genomic prediction models such as GBLUP, BayesA/B models all assume marker effects independent. Bayesian antedependence models extend this by estimating correlated marker effects, arising from linkage disequilibrium between markers. In this study we compare model fit and complexity, as well as prediction accuracy between antedependence models and other models applied to Danish Duroc pig data, including 29,567 SNPs. The results showed that anteGBLUP model and other conventional models did equally well in prediction. DIC for the models showed that anteBayesA and double-anteBayesA models had better fit, but higher number of effective parameters, and lower accuracy. In conclusion, the simple antedependence model works well for genomic prediction, but more complex antedependence models may be interesting to estimate marker effects correcting for LD structure. The DIC appears a good indicator of prediction accuracy

AB - The widely used genomic prediction models such as GBLUP, BayesA/B models all assume marker effects independent. Bayesian antedependence models extend this by estimating correlated marker effects, arising from linkage disequilibrium between markers. In this study we compare model fit and complexity, as well as prediction accuracy between antedependence models and other models applied to Danish Duroc pig data, including 29,567 SNPs. The results showed that anteGBLUP model and other conventional models did equally well in prediction. DIC for the models showed that anteBayesA and double-anteBayesA models had better fit, but higher number of effective parameters, and lower accuracy. In conclusion, the simple antedependence model works well for genomic prediction, but more complex antedependence models may be interesting to estimate marker effects correcting for LD structure. The DIC appears a good indicator of prediction accuracy

KW - antedependence model

KW - genomic prediction model

KW - comæexity and fit

M3 - Paper

T2 - 10th World Congress on Genetics Applied to Livestock Production (WCGALP)

Y2 - 17 August 2014 through 22 August 2014

ER -