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Table 3 Imputation accuracy of the MNEc670k SNP genotyping array

From: Developing a 670k genotyping array to tag ~2M SNPs across 24 horse breeds

Tagging Group 670 K to 2 M Num Imputed Samples
Land Race 0.981 +/− 0.001 3
Arabian 0.993 +/− 0.0009 13
Belgian 0.992 +/− 0.0005 7
Draft 0.9658 +/− 0.0140 6
F. Montange 0.988 +/− 0.0017 10
Icelandic 0.989 +/− 0.0012 6
Lusitano 0.992 +/− 0.0004 7
Maremanno 0.994 +/− 0.0005 9
Morgan 0.988 +/− 0.0036 20
Pony 0.991 +/− 0.0025 19
Quarter Horse 0.983 +/− 0.0033 25
Standardbred 0.989 +/− 0.0045 13
Thoroughbred 0.991 +/− 0.0068 9
Warmblood 0.985 +/− 0.0116 9
Trotter 0.9857 +/− 0.0046 9
  1. Breed specific imputation accuracy (mean +/− s.e.m.) of genotypes from MNEc670k to MNEc2M SNP sets. In each tagging breed group, 1/3 of samples genotypes were masked to lower density SNP sets and removed from the reference population of 485 horses. Imputation was performed using Beagle 4.0 and concordance was determined with VCFtools