Table 3.

Accuracies of GEBV using either GBLUP or SNP effects from BAYESA or BAYES_SSVS to predict GEBV

			Trait
Reference Set	Validation set	Method	Protein	Fat	Milk	Prot%	Fat%
Holstein only	Holstein	GBLUP	0.49	0.44	0.59	0.61	0.62
		BAYESA	0.47	0.44	0.59	0.59	0.71
		BAYES_SSVS	0.47	0.44	0.59	0.58	0.70
	Jersey	GBLUP	-0.06	-0.02	-0.02	-0.06	0.23
		BAYESA	0.24	0.35	0.37	0.33	0.63
		BAYES_SSVS	0.27	0.31	0.23	0.29	0.42
Jersey only	Holstein	GBLUP	0.03	-0.01	-0.01	0.03	0.11
		BAYESA	0.01	0.02	-0.02	0.05	0.17
		BAYES_SSVS	0.03	0.04	0.01	0.02	0.11
	Jersey	GBLUP	0.53	0.41	0.63	0.62	0.72
		BAYESA	0.43	0.37	0.59	0.51	0.67
		BAYES_SSVS	0.43	0.37	0.59	0.51	0.65
Holstein and Jersey	Holstein	GBLUP	0.49	0.45	0.59	0.61	0.62
		BAYESA	0.47	0.44	0.55	0.54	0.69
		BAYES_SSVS	0.46	0.45	0.55	0.54	0.70
	Jersey	GBLUP	0.53	0.42	0.56	0.60	0.73
		BAYESA	0.47	0.51	0.58	0.67	0.82
		BAYES_SSVS	0.47	0.51	0.58	0.67	0.82