Genomic breeding value prediction using three Bayesian methods and application to reduced density marker panels

BMC Proceedings

Table 1 Number of SNPs included in the calculation of genomic breeding values in each low-density scenario

Scenario	Evenly-spaced^a	Largest effects^b	Genotype probabilities^c	Total
EVEN_19	19			19
EVEN_38	38			38
EVEN_76	76			76
SIG_19		19		19
SIG_38		38		38
SIG_76		76		76
EVEN_GP_19	19		434	453
EVEN_GP_38	38		415	453
EVEN_GP_76	76		377	453
SIG_GP_19		19	434	453
SIG_GP_38		38	415	453
SIG_GP_76		76	377	453

^aSelected by taking the m^th SNPs from ordered list and thus SNP were approximately evenly-spaced
^bSelected by taking the top m SNPs from a list ordered by absolute effect, for each analysis method
^cGenotype probabilities were used in place of actual genotypes for all SNPs that don't fall into one of the other categories, within a scenario

ISSN: 1753-6561