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Table 2 Estimation accuracy in the Nsp 250 K array

From: Allelotyping of pooled DNA with 250 K SNP microarrays

no. of pool replicates* mean error SNPs correlation mean SD
1 0.056 91647 0.971 0.000
2 0.051 93654 0.976 0.041
3 0.047 99922 0.980 0.044
4 0.046 102687 0.983 0.046
no. of "AB" references mean error SNPs correlation mean SD
1 0.095 4790 0.980 0.041
2 0.079 3544 0.987 0.041
3 0.070 3479 0.989 0.041
4 0.064 3523 0.989 0.042
5 0.061 3364 0.986 0.043
6 0.057 3623 0.989 0.043
7 0.054 3543 0.988 0.043
8 0.052 3356 0.987 0.045
9 0.049 3419 0.988 0.045
10 0.048 3524 0.987 0.046
15 0.042 3545 0.980 0.048
20 0.035 3701 0.976 0.048
25 0.030 3208 0.959 0.046
30 0.027 1329 0.941 0.043
35 0.024 141 0.954 0.041
minor allele frequency mean error SNPs correlation mean SD
0.0 – 0.1 0.096 27688 0.915 0.037
0.1 – 0.2 0.045 23875 0.983 0.043
0.2 – 0.3 0.038 18843 0.977 0.048
0.3 – 0.4 0.033 17339 0.953 0.051
0.4 – 0.5 0.030 15783 0.778 0.053
SNP type mean error SNPs correlation mean SD
A/T, T/A 0.052 6799 0.979 0.050
A/C, T/G 0.048 16056 0.982 0.046
A/G, T/C 0.045 69445 0.983 0.045
C/G, G/C 0.043 10387 0.981 0.045
  1. *To get the error for different numbers of repeats, we took the mean of all possible combination of the four replicates. For 3 replicates for example we took the mean values of pool combinations 123, 124, 134, 234.