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Table 2 VIF and Type-I Error Control in the presence of a random effect

From: Quantitative gene set analysis generalized for repeated measures, confounder adjustment, and continuous covariates

   

VIF Estimate

Type-I Error

Sample size

Replicates

True VIF

QuSAGE

Q-Gen

Qusage

Q-Gen

5

2

20.024

10.02

18.08

.129

.049

5

5

20.024

10.38

18.47

.114

.052

5

10

20.024

10.44

19.46

.105

.054

5

2

6.435

3.63

5.99

.093

.055

5

5

6.435

3.69

5.99

.077

.055

5

10

6.435

3.70

6.28

.061

.048

15

2

20.024

10.37

19.44

.147

.052

15

5

20.024

10.47

19.13

.138

.052

15

10

20.024

10.49

19.75

.137

.051

15

2

6.435

3.69

6.27

.124

.057

15

5

6.435

3.72

6.18

.121

.054

15

10

6.435

3.71

6.38

.114

.053

  1. VIF and type-I error estimates under a longitudinal simulation in the presence of a subject specific random effect. Under the current simulation setting, the VIF estimates under QuSAGE are drastically underestimated and lead to inflated type-I error rates. Error rates in bold indicate they are within the margin of error (0.05 ± 0.00427) for the simulation study. The type-I error rates for Q-Gen are consistantly in control with mild error inflation when there are fewer replicates
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BMC Bioinformatics

ISSN: 1471-2105

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