Skip to main content

Table 2 Performance of 'RNAfold' derived structure-based SVM models for Dicer cleavage sites at 5p and 3p arm.

From: PHDcleav: a SVM based method for predicting human Dicer cleavage sites using sequence and secondary structure of miRNA precursors

Features

Window size

CD-5p (structure-based)

CD-3p (structure-based)

  

Sn

Sp

Ac

Mc

Sn

Sp

Ac

Mc

Mono

8

62.88

65.59

64.23

0.28

62.88

57.30

60.09

0.20

 

10

67.21

66.85

67.03

0.34

63.24

63.06

63.15

0.26

 

12

71.53

69.01

70.27

0.41

59.28

67.21

63.24

0.27

 

14

68.83

74.77

71.80

0.44

61.62

67.39

64.50

0.29

Dinuc

8

61.98

63.24

62.61

0.25

57.84

59.46

58.65

0.17

 

10

63.60

63.78

63.69

0.27

59.64

58.92

59.28

0.19

 

12

69.19

62.34

65.77

0.32

63.96

62.52

63.24

0.26

 

14

68.83

64.68

66.76

0.34

65.41

61.08

63.24

0.27

Trinuc

8

54.77

63.42

59.10

0.18

57.84

55.32

56.58

0.13

 

10

63.24

59.82

61.53

0.23

57.84

60.00

58.92

0.18

 

12

63.24

63.60

63.42

0.27

60.54

57.12

58.83

0.18

 

14

67.39

62.88

65.14

0.30

56.76

64.68

60.72

0.22

Binary

8

65.23

65.41

65.32

0.31

65.23

70.45

67.84

0.36

 

10

67.57

67.57

67.57

0.35

72.07

62.88

67.48

0.35

 

12

72.79

69.91

71.35

0.43

71.89

68.11

70.00

0.40

 

14

77.84

76.22

77.03

0.54

70.99

69.73

70.36

0.41

  1. Models were developed using composition and binary pattern of different window sizes. Patterns were taken from structure of Dicer cleavage site of 5p arm (structure of CP-5p) and 3p arm (structure of CP-3p) using miRNA.str data.