Using pre-selected variants from large-scale whole-genome sequence data for single-step genomic predictions in pigs

Table 4 Prediction accuracy of WssGBLUP compared to ssGBLUP

Line	Description	ADFI	ADG	BF	LDP
ML1	Top40k	0.37 (0.01)	0.49 (0.01)	0.51 (0.01)	0.53 (0.01)
	Top40k weighted	0.37 (0.01)	0.49 (0.01)	0.51 (0.01)	0.53 (0.01)
	ChipPlusSign	0.37 (0.01)	0.47 (0.01)	0.51 (0.01)	0.52 (0.01)
	ChipPlusSign weighted	0.37 (0.01)	0.47 (0.01)	0.51 (0.01)	0.51 (0.01)
ML2	Top40k	0.36 (0.01)	0.61 (0.01)	0.64 (0.01)	0.62 (0.01)
	Top40k weighted	0.35 (0.01)	0.62 (0.01)	0.66 (0.01)	0.53 (0.01)
	ChipPlusSign	0.37 (0.01)	0.61 (0.01)	0.63 (0.01)	0.62 (0.01)
	ChipPlusSign weighted	0.37 (0.01)	0.62 (0.01)	0.65 (0.01)	0.53 (0.01)
TL1	Top40k	0.34 (0.01)	0.45 (0.01)	0.59 (0.01)	0.56 (0.01)
	Top40k weighted	0.34 (0.01)	0.45 (0.01)	0.59 (0.01)	0.55 (0.01)
	ChipPlusSign	0.36 0.01)	0.49 (0.01)	0.61 (0.02)	0.60 (0.01)
	ChipPlusSign weighted	0.36 (0.01)	0.50 (0.01)	0.60 (0.02)	0.60 (0.01)
TL4	Top40k	0.39 (0.01)	0.51 (0.01)	0.60 (0.01)	0.59 (0.01)
	Top40k weighted	0.39 (0.01)	0.57 (0.01)	0.63 (0.01)	0.63 (0.01)
	ChipPlusSign	0.40 (0.01)	0.51 (0.01)	0.60 (0.01)	0.57 (0.01)
	ChipPlusSign weighted	0.40 (0.01)	0.54 (0.01)	0.62 (0.01)	0.61 (0.01)

ML1: maternal line 1; ML2: maternal line 2; TL1: terminal line 1; TL4: terminal line4; ADFI: average daily feed intake; ADG: average daily gain; BF: backfat thickness; LDP: loin depth; Top40k: top40k preselected genotype panel; Top40k weighted: top40k using BayesR weighting; ChipPlusSign: ChipPlusSign preselected genotype panel; ChipPlusSign weighted: ChipPlusSign using BayesR weighting
Standard errors are in parenthesis

ISSN: 1297-9686