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Table 3 Recall estimation versus TICA with respect to testing dataset TS

From: NAUTICA: classifying transcription factor interactions by positional and protein-protein interaction information

Actual class

TICA (p = 0.2)

TICA (p = 0.3)

NAUTICA

 

NINT

INT

Recall

NINT

INT

Recall

NINT

INT

Recall

NINT

18

33

35%

18

33

35%

21

30

41%

COMP

4

4

50%

3

5

63%

3

5

63%

COOP

25

38

60%

22

41

65%

38

48

76%

NINTa

3868

2497

61%

3868

2497

61%

5259

1106

83%

COMPa

69

54

44%

36

87

71%

68

55

44%

COOPa

248

443

64%

186

500

73%

154

537

77%

  1. Note: COOP and COMP predictions from NAUTICA were collapsed into the general ``interaction” (INT) category for the comparison. Upper: no calibration. Lower: with calibration (also marked with a). Calibration is done with the same procedure as the general NAUTICA recall analysis (Table 2)