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Table 1 Assess of FDR control and TPr when controlling estimated FDR at 0.05

From: Modeling allele-specific expression at the gene and SNP levels simultaneously by a Bayesian logistic mixed regression model

Method

True FDR

TPr(%)

 

gene

SNP

gene-SNP

gene

SNP

gene-SNP

BLMRM

0.053

0.028

0.059

66.37

60.82

17.51

 

(0.006)

(0.004)

(0.014)

(0.87)

(1.80)

(1.65)

BLMRM

0.060

0.030

0.094

68.87

56.82

17.50

(pure Laplace)

(0.006)

(0.002)

(0.008)

(0.29)

(1.19)

(0.91)

GLMM

0.073

0.006

0.625

68.66

57.20

86.72

 

(0.010)

(0.002)

(0.004)

(1.52)

(1.49)

(0.86)

MBASED

0.358

0.032

-

91.34

64.32

-

 

(0.006)

(0.005)

-

(0.54)

(1.51)

-

ANOVA

0.194

-

-

82.02

-

-

 

(0.007)

-

-

(1.04)

-

-

Binomial

0.314

-

-

88.26

-

-

 

(0.003)

-

-

(0.80)

-

-

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BMC Bioinformatics

ISSN: 1471-2105

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