Skip to main content

Table 2 The concordance of the markers

From: Addressing the Challenge of Defining Valid Proteomic Biomarkers and Classifiers

 

All data

30% data hold out

# resamples

N = 0

N = 2

N = 10

N = 20

N = 30

N = 40

N = 50

N = 100

f(100%)

141

44

16

12

7

8

7

6

f(80%)

141

44

32

27

22

16

20

21

f(50%)

141

125

53

57

49

45

46

47

Concordance in test set

 

58 (41%)

19 (43%)

11 (68%)

10 (83%)

7 (100%)

7 (87%)

6 (85%)

6 (100%)

 

58 (41%)

19 (43%)

21 (65%)

18 (66%)

16 (72%)

13 (81%)

15 (75%)

16 (76%)

 

58 (41%)

43 (34%)

26 (49%)

30 (52%)

26 (53%)

26 (57%)

25 (54%)

25 (53%)

  1. Concordance of markers detected during resampling with those found significant in the test set: A total of 100 resamples are drawn. For each of the resamples, 30% of the 2 × 67 training samples were held out. The number of significant markers with a p-value less than 0.05 after BH adjusted WT test for 50%, 80% and 100% of the resamples is shown. Their concordance in an independent test set of 2 × 67 is also reported in the lower panel. For more than 40 resamples the concordance of the biomarkers remains almost unchanged.