Comparing traditional and Bayesian analyses of selection experiments in animal breeding

Journal of Agricultural, Biological, and Environmental Statistics

Volumn 5, Issue 2, 2000, Pages 240-256

  Wright, Deanne Reber ^a   Stern, Hal S ^b   Berger, P Jeffrey ^c  

^a PIONEER HI BRED INTERNATIONAL INC   (United States)

^b Iowa State University   (United States)

^c IOWA STATE UNIVERSITY   (United States)

Author keywords

Best linear unbiased predictor; Gibbs sampling; Mixed linear model; Posterior distribution; Restricted maximum likelihood; Variance component

Indexed keywords

ANIMALIA;

EID: 0038077302     PISSN: 10857117     EISSN: None     Source Type: Journal    
DOI: 10.2307/1400533     Document Type: Article

References (25)

1. Bertrand, J. A., Berger, P. J., Freeman, A. E., and Kelley, D. H. (1985), "Profitability in Daughters of High Versus Average Holstein Sires Selected for Milk Yield of Daughters," Journal of Dairy Science, 68, 2287-2294.
2. Gelman, A., Carlin, J. B., Stern, H. S., and Rubin, D. B. (1995), Bayesian Data Analysis, New York: Chapman and Hall.
3. Gelman, A., and Rubin, D. B. (1992), "Inference From Iterative Simulation Using Multiple Sequences," Statistical Science, 7, 457-511.
4. Gianola, D., and Fernando, R. L. (1986), "Bayesian Methods in Animal Breeding Theory," Journal of Animal Science, 63, 217-244.
5. Gianola, D., Im, S., and Macedo, F. (1990), "A Framework for Prediction of Breeding Value," in Advances in Statistical Methods for Genetic Improvement of Livestock, eds. D. Gianola and K. Hammond, New York: Springer-Verlag, pp. 210-238.
6. Gilks, W., Richardson, S., and Spiegelhalter, D., eds. (1996), Markov Chain Monte Carlo in Practice, New York: Chapman and Hall.
7. Harville, D. A. (1974), "Bayesian Inference for Variance Components Using Only Error Contrasts," Biometrika, 61, 383-385.
8. Harville, D. A. (1977), "Maximum Likelihood Approaches to Variance Component Estimation and to Related Problems," Journal of the American Statistical Association, 72, 320-339.
9. Harville, D. A., and Jeske, D. R. (1992), "Mean Squared Error of Estimation or Prediction Under a General Linear Model," Journal of the American Statistical Association, 87, 724-731.
10. Henderson, C. R. (1976), "A Simple Method for Computing the Inverse of a Numerator Relationship Matrix Used in Prediction of Breeding Values," Biometrics, 32, 69-83.
11. Henderson, C. R., Kempthorne, O., Searle, S. R., and von Krosigk, C. M. (1959), "The Estimation of Environmental and Genetic Trends From Records Subject to Culling," Biometrics, 15, 192-218.
12. Hobert, J. P., and Casella, G. (1996), "The Effect of Improper Priors on Gibbs Sampling in Hierarchical Linear Mixed Models," Journal of the American Statistical Association, 91, 1461-1473.
13. Kackar, R. N., and Harville, D. A. (1984), "Approximations for Standard Errors of Estimators of Fixed and Random Effects in Mixed Linear Models," Journal of the American Statistical Association, 79, 853-862.
14. Kaplon, M. J., Rothschild, M. F., Berger, P. J., and Healey, M. (1991), "Genetic and Phenotypic Trends in Polish Large White Swine Herds," Journal of Animal Science, 69, 551-558.
15. Lin, E.-C., and Berger, P.J. (1992), "Estimates of Genetic Parameters for Growth and Reproductive Traits in Two Selection Lines of Tribolium castaneum," Journal of Animal Science, 70 (Suppl. 1), 39.
16. Lin, E.-C., and Berger, P. J. (1993), "Comparison of Correlated Responses Predicted by Single-and Multiple-Trait Analyses," Journal of Animal Science, 71 (Suppl. 1), 39.
17. Nizamani, A. H., and Berger, P. J. (1996), "Estimates of Genetic Trend for Yield Traits of the Registered Jersey Population," Journal of Dairy Science, 79, 487-494.
18. Patterson, H. D., and Thompson, R. (1971), "Recovery of Inter-Block Information When Block Sizes Are Unequal," Biometrika, 58, 545-554.
19. Robinson, G. K. (1991), "That BLUP Is a Good Thing: The Estimation of Random Effects," Statistical Science, 6(1), 15-51.
20. Searle, S. R., Casella, G., and McCulloch, C. E. (1992), Variance Components, New York: Wiley.
21. Sorensen, D., Wang, C. S., Jensen, J., and Gianola, D. (1994), "Bayesian Analysis of Genetic Change Due to Selection Using Gibbs Sampling," Genetics, Selection, Evolution, 26, 333-360.
22. Wang, C. S., Gianola, D., Sorensen, D. A., Jensen, J., Christensen, A., and Rutledge, J. (1994a), "Response to Selection for Litter Size in Danish Landrace Pigs: A Bayesian Analysis," Theoretical and Applied Genetics, 88, 220-230.
23. Wang, C. S., Rutledge, J., and Gianola, D. (1994b), "Bayesian Analysis of Mixed Linear Models via Gibbs Sampling With an Application to Litter Size in Iberian Pigs," Genetics, Selection, Evolution, 26, 91-115.
24. Wright, S. (1922), "Coefficients of Inbreeding and Relationship," American Naturalist, 56, 330.
25. Zimmerman, D. L., and Cressie, N. (1992), "Mean Squared Prediction Error in the Spatial Linear Model With Estimated Covariance Parameters," Annals of the Institute of Statistical Mathematics, Tokyo, 44, 27-43.