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Table 1 Ranks of truly influential single-nucleotide polymorphisms by genome-wide association studies, FBAT, and gene dropping

From: Family-based association test using normal approximation to gene dropping null distribution

GWAS

FBAT

Gene dropping

Rank

Relative rank (%)

SNP position

Rank

Relative rank (%)

SNP position

Rank

Relative rank (%)

SNP position

22

0.00212

47957996

1433

0.25642

47956424

1.5

0.00012

48040283

27

0.00260

48040283

2,903

0.51947

47958037

3.5

0.00029

47957996

1,561

0.15024

141693906

2,913

0.52126

50185967

202.5

0.01686

47958037

5,901

0.56796

47467805

5,536

0.99062

48040283

232

0.01932

47956424

11,415

1.09868

58161774

9,086.5

1.62595

47957996

3,937

0.32787

48040284

21,148.5

2.03552

47958037

15,860.5

2.83810

141093285

13,668

1.13826

58109162

23,791

2.28985

196597635

17,341.5

3.10311

141162128

19,870.5

1.65480

123170592

28,783

2.77033

135789360

22,148.5

3.96328

139276557

37,071

3.08725

141162128

30,761.5

2.96075

47956424

23,778

4.25487

141160882

40,497.5

3.37261

47913455

34,720.5

3.34180

58190853

32,483

5.81256

58192585

42,740

3.55936

141160882

  1. Rank is raw ranks in terms of p-value significance of truly influential single-nucleotide polymorphisms (SNPs) (smaller numbers better, indicating that the method identifies a true SNP as more significant). The fractional ranks appearing in the gene-dropping column arise from ties: two SNPs being assigned exactly the same p-value. Note that it is not completely fair to compare these numbers directly because FBAT and genome-wide association studies (GWAS) produce not available (NA) results for a significant portion of the tested SNPs. Relative rank is the normalized ranks of truly influential SNPs: p-value rank divided by the total number of non-NA SNPs tested multiplied by 100. SNP position is the base-pair position of the identified truly influential SNP.
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BMC Proceedings

ISSN: 1753-6561

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