Table 3.

Number of significant SNPs influencing direct genetic effects and inflation factor for body weight recorded at different ages

Trait	Dependent variable	Polygenic effect	FDRa	Bonferronib	λ
BW0	Phen	$\mathbf{A}$	1213	64	1.92
		$\mathbf{G}$	7	3	0.96
		LOCO	2268	125	2.22
		LOCO_pruned	394	43	1.97
		LOCO_SEG40	1811	103	2.06
		LOCO_SEG441	80	17	1.29
		LOCO_SEG864	41	12	1.18
		LOCO + PC20	1132	73	1.90
		LOCO + CHR_PC20	16	7	0.93
	dDRP	$\mathbf{A}$	1463	104	1.96
		$\mathbf{G}$	15	6	0.96
		LOCO	2212	163	2.19
		LOCO_pruned	414	54	1.91
		LOCO_SEG40	1802	143	2.07
		LOCO_SEG441	103	23	1.28
		LOCO_SEG864	57	15	1.17
		LOCO + PC20	1180	108	1.87
		LOCO + CHR_PC20	13	8	0.90
BW23	Phen	$\mathbf{A}$	11	0	1.17
		$\mathbf{G}$	0	0	0.99
		LOCO + CHR_PC20	0	0	0.66
		LOCO + CHR_PC10	0	0	0.93
	dDRP	$\mathbf{A}$	22	5	1.33
		$\mathbf{G}$	3	2	1.00
		LOCO + CHR_PC20	0	0	0.70
		LOCO + CHR_PC10	1	1	0.96
BW1314	Phen	$\mathbf{A}$	47	14	1.46
		$\mathbf{G}$	5	3	0.97
		LOCO + CHR_PC20	2	2	0.72
		LOCO + CHR_PC10	7	4	0.98
	dDRP	$\mathbf{A}$	50	17	1.45
		$\mathbf{G}$	7	6	0.97
		LOCO + CHR_PC20	3	3	0.72
		LOCO + CHR_PC10	12	6	0.97

FDR: false discovery rate; Bonferroni: Bonferroni correction; λ: inflation factor; BW0: body weight recorded at birth; BW23: body weight recorded at 2 to 3 month of age; BW1314: body weight recorded at 13 to 14 months of age; dDRP: de-regressed proofs for the direct genetic effect; mDRP: de-regressed proofs for the maternal genetic effect; LOCO_pruned: LOCO based on pruned SNPs

^aNumber of significant SNPs according to false discovery rate

^bNumber of significant SNPs according to Bonferroni-correction