Table 6

Sample size estimates (standard deviations) for the proposed method and the Tibshirani [10] permutation method under a correlated model with effect size 1.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%

26

39.4(11.166)

77.8(22.283)

40.5(8.743)

56.8(12.376)

29.0

70%

29

43.0(11.659)

84.5(24.442)

43.5(8.913)

61.1(13.570)

31.7

80%

33

48.7(13.104)

92.2(23.398)

47.8(9.138)

65.4(13.134)

NaN

90%

40

56.8(13.846)

106.3(25.373)

54.3(9.168)

74.1(13.846)

NaN

10%

60%

23

34.9(9.140)

60.9(18.692)

36.8(8.074)

48.5(12.212)

25.0

70%

26

38.8(9.821)

66.2(18.993)

40.0(8.408)

52.0(11.819)

27.8

80%

29

43.3(10.399)

72.5(18.492)

43.3(8.475)

55.8(11.662)

31.4

90%

35

50.2(10.649)

83.7(20.271)

49.5(8.593)

64.0(12.485)

NaN

20%

60%

19

31.1(9.066)

47.0(14.301)

32.6(7.572)

39.8(9.552)

20.7

70%

22

34.4(8.740)

50.4(14.156)

35.7(7.816)

42.6(9.570)

23.4

80%

25

38.6(9.611)

55.5(15.393)

39.0(7.766)

46.6(10.415)

27

90%

31

44.7(9.655)

63.6(14.919)

44.5(7.999)

52.3(10.313)

32.3


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 = 1 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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