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Table 1 Error of the RAS values of single DNA pools

From: Comparison of genotyping using pooled DNA samples (allelotyping) and individual genotyping using the affymetrix genome-wide human SNP array 6.0

Pool 1 RAS (Birdseed2) RAS (CEL)   RAS (k-corrected) RAS (PPC-corrected)
SNP set Q90 (Median) Mean (SD) Q90 (Median) Mean (SD) Q90 (Median) Mean (SD) Q90 (Median) Mean (SD)
all SNPs (N = 772731) 0.25 (0.138) 0.141 (0.081) 0.257 (0.144) 0.146 (0.083) 0.267 (0.127) 0.14 (0.09) NA NA
10000 SNPs MAF >1% 0.202 (0.108) 0.112 (0.066) 0.209 (0.114) 0.117 (0.068) 0.185 (0.1) 0.103 (0.06) 0.0642 (0.026) 0.031 (0.024)
10000 SNPs MAF >5% 0.192 (0.0981) 0.104 (0.064) 0.199 (0.104) 0.108 (0.065) 0.170 (0.0902) 0.0938 (0.057) NA NA
Pool 1 RAS (tan-corrected n = 0.5) RAS (tan-corrected n = 1) RAS (tan-corrected n = 2)   
SNP set Q90 (Median) Mean (SD) Q90 (Median) Mean (SD) Q90 (Median) Mean (SD)   
all SNPs (N = 772731) 0.122 (0.0417) 0.0577 (0.11) 0.13 (0.0438) 0.0628 (0.15) 0.16 (0.0539) 0.11 (1.6)   
10000 SNPs MAF >1% 0.0744 (0.0306) 0.0362 (0.028) 0.0806 (0.0333) 0.0392 (0.03) 0.104 (0.0464) 0.0523 (0.037)   
10000 SNPs MAF >5% 0.0724 (0.0298) 0.0353 (0.027) 0.0783 (0.0325) 0.0382 (0.029) 0.101 (0.046) 0.0515 (0.036)   
Pool 2 RAS (Birdseed2) RAS (CEL)   RAS (k-corrected) RAS (PPC-corrected)
SNP set Q90 (Median) Mean (SD) Q90 (Median) Mean (SD) Q90 (Median) Mean (SD) Q90 (Median) Mean (SD)
all SNPs (N = 772731) 0.252 (0.139) 0.142 (0.082) 0.262 (0.147) 0.149 (0.085) 0.267 (0.128) 0.14 (0.09) NA NA
10000 SNPs MAF >1% 0.199 (0.107) 0.110 (0.066) 0.206 (0.112) 0.114 (0.068) 0.18 (0.0993) 0.101 (0.059) 0.0641 (0.0251) 0.0306 (0.024)
10000 SNPs MAF >5% 0.191 (0.0976) 0.103 (0.064) 0.195 (0.101) 0.105 (0.065) 0.165 (0.0893) 0.0914 (0.055) NA NA
Pool 2 RAS (tan-corrected n = 0.5) RAS (tan-corrected n = 1) RAS (tan-corrected n = 2)   
SNP set Q90 (Median) Mean (SD) Q90 (Median) Mean (SD) Q90 (Median) Mean (SD)   
all SNPs (N = 772731) 0.123 (0.043) 0.058 (0.061) 0.129 (0.0451) 0.0625 (0.14) 0.157 (0.0548) 0.107 (2.6)   
10000 SNPs MAF >1% 0.075 (0.0304) 0.0363 (0.028) 0.0804 (0.0329) 0.0388 (0.03) 0.101 (0.0442) 0.0506 (0.037)   
10000 SNPs MAF >5% 0.0737 (0.0304) 0.0359 (0.027) 0.0786 (0.0326) 0.0383 (0.029) 0.0993 (0.0442) 0.0499 (0.035)   
  1. Absolute differences (error) between RAS values obtained by allelotyping using DNA-pools and expected RAS values calculated from calls obtained by individual genotyping of the same DNA samples. Q90 represents the 90% quantile, SD the standard deviation of the error.