TABLE 2.

Posterior mean of residual variance, , regularization parameter, , and correlation between the true and estimated value for several items (, phenotypes; , true genomic value; , marker effects; all quantities averaged over 100 MC replicates)

	Meana	SDb	Meana	SDb	Meanc	SDb	Meanc	SDb	Meanc	SDb
Low linkage disequilibrium between markers (X0)
BL1	0.909	0.088	24.110	1.883	0.640	0.039	0.657	0.070	0.328	0.062
BL2	0.990	0.095	35.986	4.944	0.615	0.044	0.661	0.073	0.332	0.061
BL3	1.035	0.096	45.506	6.755	0.601	0.045	0.660	0.074	0.329	0.059
BL4	1.093	0.098	63.748	9.200	0.584	0.044	0.657	0.077	0.323	0.056
BL5	1.006	0.104	41.920	11.570	0.610	0.050	0.660	0.073	0.330	0.059
High linkage disequilibrium between markers (X1)
BL1	0.917	0.088	23.770	1.621	0.607	0.039	0.699	0.071	0.294	0.050
BL2	0.991	0.093	36.168	4.163	0.569	0.044	0.705	0.074	0.300	0.046
BL3	1.030	0.095	45.572	5.735	0.551	0.045	0.704	0.076	0.296	0.044
BL4	1.078	0.097	62.373	8.435	0.529	0.046	0.700	0.079	0.291	0.043
BL5	1.003	0.099	41.072	9.724	0.564	0.051	0.704	0.074	0.299	0.046

^aMean (across 100 MC replicates) of the posterior mean.

^bBetween-replicate standard deviation of the estimate.

^cMean (across MC replicates) of the correlation evaluated at the posterior mean of . The priors on were as follows: BL1, ; BL2, ; BL3, ; and BL4, . In BL5, .