Table 1

Model-based performance measures (Multivariable models)

Method (Model)1

AUC (95% CI) 2

ACC3

PPV4

NPV5

AIC6


stepPLR (λ = 0.1) (male only, with age)

0.96(0.94-0.98)

87.71

90.68

82.61

93.92

stepPLR (λ = 1) (male only, with age)

0.96(0.94-0.98)

89.30

92.31

84.29

94.84

stepPLR (λ = 10) (male only, with age)

0.96(0.94-0.98)

89.83

93.10

84.51

95.39

stepPLR (λ = 0.1) (male only, without age)

0.92(0.88-0.95)

83.42

88.59

75.34

135.39

stepPLR (λ = 1) (male only, without age)

0.92(0.88-0.95)

84.49

90.17

76.00

136.39

stepPLR (λ = 10) (male only, without age)

0.92(0.89-0.96)

84.49

90.90

75.32

134.57

stepPLR (λ = 0.1) (gender, with age)

0.95(0.93-0.98)

88.25

91.02

84.25

142.14

stepPLR (λ = 1) (gender, with age)

0.95(0.93-0.98)

88.63

91.61

84.40

142.48

stepPLR (λ = 10) (gender, with age)

0.95(0.93-0.97)

89.01

92.20

84.54

148.32

stepPLR (λ = 0.1) (gender, without age)

0.94(0.91-0.96)

85.61

89.54

80.18

173.22

stepPLR (λ = 1) (gender, without age)

0.94(0.91-0.97)

85.61

90.06

79.65

174.15

stepPLR (λ = 10) (gender, without age)

0.93(0.91-0.96)

85.23

90.54

78.44

180.61

mob(AAT|~.) with age, male only)

0.94(0.91-0.97)

87.29

89.65

83.07

131.68

mob(GP73|~.) with age, male only)

0.95(0.93-0.98)

87.87

91.89

81.42

108.96

mob(AFP|~.) with age, male only)

0.96(0.94-0.98)

89.50

90.67

87.30

103.38

mob(Kin|~.) with age, male only)

0.95(0.92-0.98)

86.74

88.24

83.87

117.63

mob(AAT|~.) without age, male only)

0.88(0.83-0.94)

84.49

87.50

79.10

157.50

mob(GP73|~.) without age, male only)

0.89(0.85-0.94)

80.21

83.61

73.84

153.01

mob(AFP|~.) without age, male only)

0.86(0.81-0.91)

79.14

81.74

73.77

169.15

mob(Kin|~.) without age, male only)

0.91(0.87-0.95)

88.23

89.43

85.93

140.17

mob(AAT|~.) with age, gender)

0.95(0.93-0.97)

87.50

90.38

83.33

171.96

mob(GP73|~.) with age, gender)

0.97(0.96-0.99)

90.90

91.41

90.09

124.26

mob(AFP|~.) with age, gender)

0.96(0.94-0.98)

87.87

89.93

84.76

159.88

mob(Kin|~.) with age, gender)

0.95(0.93-0.97)

89.01

88.23

90.42

155.18

mob(AAT|~.) without age, gender)

0.91(0.88-0.95)

85.98

88.13

82.69

197.87

mob(GP73|~.) without age, gender)

0.94(0.91-0.96)

85.33

92.36

78.06

177.11

mob(AFP|~.) without age, gender)

0.92(0.89-0.95)

85.22

87.50

81.73

190.61

mob(Kin|~.) without age, gender)

0.92(0.88-0.95)

87.87

88.48

86.86

192.78


1. Method utilized for analysis, stepPLR stepwise penalized logistic regression with or without age and/or gender, mob model-based CART, classification and regression trees developed with or without age and/or gender; 2) AUC, area under the curve; 3) ACC, prediction accuracy. 4) PPV, Positive predicative value; 5) NPV, negative predictive value; 6) AIC, Akaike Information Criterion

Wang et al. BMC Medical Genomics 2013 6(Suppl 3):S9   doi:10.1186/1755-8794-6-S3-S9

Open Data