A Bayesian method and its variational approximation for prediction of genomic breeding values in multiple traits

BMC Bioinformatics

Table 2 Accuracy and bias of predicted GBVs in Data II

Method			Trait A	Trait B	Trait C
MCBayes	π = 0	r _TBV,pGBV	0.902 ± 0.032	0.706 ± 0.103	0.519 ± 0.097
		b _TBV,pGBV	0.998 ± 0.034	0.902 ± 0.111	0.796 ± 0.179
	0 < π <1	r _TBV,pGBV	0.868 ± 0.047	0.731 ± 0.120	0.401 ± 0.182
		b _TBV,pGBV	1.092 ± 0.093	1.189 ± 0.199	1.198 ± 0.553
varBayes	π = 0	r _TBV,pGBV	0.859 ± 0.049	0.656 ± 0.110	0.438 ± 0.074
		b _TBV,pGBV	1.059 ± 0.065	0.799 ± 0.105	0.724 ± 0.111
	0 < π <1	r _TBV,pGBV	0.838 ± 0.061	0.678 ± 0.140	0.330 ± 0.157
		b _TBV,pGBV	0.983 ± 0.034	0.851 ± 0.138	0.562 ± 0.155
single-trait	π =0	r _TBV,pGBV	0.884 ± 0.039	0.485 ± 0.086	0.493 ± 0.089
(MCBayes)		b _TBV,pGBV	0.974 ± 0.035	0.766 ± 0.113	0.766 ± 0.113
	0 < π <1	r _TBV,pGBV	0.843 ± 0.044	0.597 ± 0.120	0.601 ± 0.109
		b _TBV,pGBV	1.562 ± 0.261	1.787 ± 0.431	1.832 ± 0.565

Averages and standard errors based on 20 replicates of simulated data are listed for prediction accuracy, r_pGBV,TBV, and bias, b_pGBV,TBV, of each trait. For the settings of the prior probability that a SNP has zero effect, π, see Table1.

ISSN: 1471-2105