Table 4

Sample size estimates (standard deviations) for the proposed method and the Tibshirani [10] permutation method under a correlated model with effect size 2.a

Pilot study of group size 4

Pilot study of group

size 6

Entire data of size 62




π1

λ0

nb

nc

nd

nc

nd

ne


5%

60%

9

12.2(2.931)

20.2(6.529)

12.7(2.193)

14.9(3.347)

9.5

70%

9

13.1(2.848)

21.6(6.209)

13.4(2.330)

15.9(3.504)

10.3

80%

10

14.3(3.017)

23.6(6.399)

14.4(2.335)

17.2(3.547)

11.5

90%

12

16.3(2.997)

27.1(6.303)

16.1(2.365)

19.5(3.559)

13.7

10%

60%

8

10.9(2.409)

15.7(4.664)

11.5(2.015)

12.5(2.828)

8.1

70%

8

11.8(2.544)

16.8(4.858)

12.1(2.096)

13.4(2.971)

8.8

80%

9

13.0(2.601)

18.6(4.809)

13.0(2.033)

14.4(2.852)

9.8

90%

11

14.7(2.944)

21.5(5.250)

14.6(2.275)

16.4(3.099)

11.8

20%

60%

7

9.8(2.184)

12.2(3.608)

10.3(1.832)

10.4(2.390)

6.7

70%

7

10.4(2.236)

12.8(3.675)

10.7(1.899)

10.9(2.446)

7.3

80%

8

11.4(2.414)

14.2(3.709)

11.6(1.995)

11.9(2.506)

8.2

90%

9

13.1(2.515)

16.5(3.902)

13.0(2.074)

13.6(2.603)

9.9


a. The sample size estimates are based on 1,000 repetitions using the colon tumor data [14] with 4 and 6 samples from each group as pilot dataset. The parameters used in the calculation were: m = 2,000, δ0 = 2 and q* = 0.05.

b. The univariate method.

c. The proposed permutation method

d. The Tibshirani [10] permutation method.

e. The Shao and Tseng [8] model-free method using the entire 62 samples.

Lin et al. BMC Bioinformatics 2010 11:48   doi:10.1186/1471-2105-11-48

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