A hybrid expectation maximisation and MCMC sampling algorithm to implement Bayesian mixture model based genomic prediction and QTL mapping

Table 6 The accuracy and bias of multi-breeds prediction of GBLUP, BayesR(BR), emBayesR (EM), and HyB_BR (HB)

		Milk yield		Protein yield		Fat%		Fertility
		Acc.	Bias	Acc.	Bias	Acc.	Bias	Acc.	Bias
		Holstein and Jersey reference to predict Holstein validation
GBLUP	+Poly^a	0.63	0.83	0.65	0.85	0.74	0.85	0.44	1.66
GBLUP	-Poly^b	0.62	0.90	0.57	0.88	0.72	0.90	0.42	1.66
BR	+Poly^a	0.68	0.84	0.68	0.88	0.81	0.90	0.44	1.53
BR	-Poly^b	0.67	0.91	0.67	1.03	0.79	0.98	0.42	1.53
EM	+Poly^a	0.68	0.90	0.68	0.79	0.77	0.83	0.44	1.27
EM	-Poly^b	0.65	0.91	0.66	0.85	0.75	0.87	0.44	1.27
HB	+Poly^a	0.68	0.82	0.67	0.88	0.81	0.94	0.44	1.33
HB	-Poly^b	0.67	0.89	0.67	0.95	0.80	1.08	0.44	1.33
		Holstein and Jersey reference to predict Jersey validation
GBLUP	+Poly^a	0.64	0.78	0.68	0.85	0.66	0.73	0.24	1.12
GBLUP	-Poly^b	0.64	0.90	0.69	1.02	0.64	0.80	0.24	1.12
BR	+Poly^a	0.69	0.85	0.71	0.99	0.76	0.88	0.26	1.23
BR	-Poly^b	0.68	0.95	0.71	1.09	0.74	0.94	0.25	1.24
EM	+Poly^a	0.66	0.84	0.69	0.71	0.75	0.76	0.23	1.13
EM	-Poly^b	0.63	0.86	0.68	0.73	0.70	0.82	0.23	1.13
HB	+Poly^a	0.71	0.89	0.74	0.94	0.77	0.89	0.26	1.02
HB	-Poly^b	0.69	0.98	0.73	1.02	0.73	0.97	0.26	1.02

^ameans polygenic effects are included in the predictions; while ^bmeans the predictions do not include polygenic effects into the model

ISSN: 1471-2164