Table 5

Comparison of several SNP filtering criteria and ADT design scores in true-positive and false-positive SNPs
SNP No of SNPs ADT design score Average quality score of reference SNP quality score of reference SNP mapping quality score Read mapping depth Folded variant frequency
True-positive 2,765 0.974 ± 0.050(a) 54.9 ± 9.4 59.2 ± 6.6 34.3 ± 1.6 18.4 ± 9.3 0.39 ± 0.11
False-positive 2,655 0.971 ± 0.053 54.3 ± 10.1 59.1 ± 7.1 33.7 ± 2.0 31.7 ± 18.0 0.34 ± 0.11
P value of t test 0.0597 0.0136* 0.4553 <0.0001** <0.0001** <0.0001**

(a) average ± standard deviation; * and ** represent statistical significance at 0.05 and 0.01 probability level, respectively.

You et al.

You et al. BMC Genomics 2012 13:354   doi:10.1186/1471-2164-13-354

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