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Table 2 Preselected SNPs based on different cutoff values for the FST scores and different simulation scenarios

From: High density marker panels, SNPs prioritizing and accuracy of genomic selection

Panel density QTL effects1 Quantile FST Score3 Selected SNPs4
   99.5 0.02 935
  Gamma5 99.0 0.01 1956
   97.5 0.004 4932
200 K
   99.5 0.009 1076
  Predefined6 99.0 0.007 2171
   97.5 0.005 5620
   99.5 0.015 2078
  Gamma 99.0 0.009 3586
   97.5 0.004 10,178
400 K
   99.5 0.009 2036
  Predefined 99.0 0.007 4646
   97.5 0.004 10,651
  1. 1Distribution used for the simulation of the QTL effects, 2quantiles of the FST score distribution, 3cutoff point for the fixation index (FST), 4number of selected SNPs based on the FST score cutoff, 5Gamma distribution with shape parameter equal 0.4, and 6QTL effects pre-defined to explain at least 0.5% of genetic variance each