Table 1. Summary of all simulations.

Number of scenario	Dataset (number of SNPs)	Sample size of training set	Causal SNPs (number and location)	Distribution of effects	Heritability	Simulation model	Methods
1	All 22 chromosomes	6000	30 in HLA	Gaussian	0.5	ADD	C+T
			30 in all				PLR
	(281,122 SNPs)		300 in all	Laplace	0.8	COMP	PLR3
			3000 in all				(T-Trees)

2	Chromosome 6 only	—a	— a	— a	— a	ADD	C+T
	(18,941 SNPs)						PLR

3	All 22 chromosomes	1000	300 in all	— a	— a	— a	— a
	(281,122 SNPs)	2000
		3000
		4000
		5000

^aParameters are the same as the ones in the upper box.