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Table 3 Binary classification of cysteines

From: A simplified approach to disulfide connectivity prediction from protein sequences

Method

PDBselect

SPX-

PDB4136

 

Q c

P c

R c

Q c

P c

R c

Q c

P c

R c

APTK (PSSM)

88.8

83.8

87.7

86.1

79.0

82.8

88.2

84.0

82.5

APTK (profiles)

87.7

83.1

85.1

85.3

78.6

80.5

89.7

81.0

88.5

DISULFIND (PSSM)

88.3

85.0

84.3

85.3

82.6

74.1

88.0

79.1

85.5

DISULFIND (profiles)

88.6

87.4

82.1

86.5

83.0

77.5

89.4

81.2

87.4

D-simple (PSSM)

82.2

77.0

76.4

81.3

74.5

71.5

83.0

79.5

69.3

D-simple (profiles)

81.5

76.0

75.3

81.1

74.3

71.1

83.0

77.1

73.4

APTK + DISULFIND

89.9

87.8

85.5

87.0

82.6

80.2

90.3

82.1

89.2

multiple SVM + CSS [14]

-

-

-

-

-

-

90

91

77

  1. Experimental comparison of various algorithms for binary classification of cysteines. Positive examples are disulfide-bond cysteines. We report two-state prediction accuracy (Q c ), precision (P c ) and recall (R c ) on PDBselect, SPX- and PDB4136 data sets.