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Table 6 Comparative results of subset events with selected triggers on the whole, abstract, and full paper collections from the development set of BioNLP-ST 2011 GE task

From: A generalizable NLP framework for fast development of pattern-based biomedical relation extraction systems

 

Whole

Abstract

Full

 

P

R

F

P

R

F

P

R

F

Basic patterns

 Simple event

93.01

51.90

66.62

91.67

48.99

63.85

94.42

55.24

69.71

 Binding

94.95

24.74

39.25

91.67

22.73

36.42

100.00

28.26

44.07

Total

93.32

43.98

59.78

91.67

40.35

56.04

95.17

48.68

64.41

Using sentence simplification

 Simple event

92.99

74.76

82.88

92.71

74.70

82.74

93.31

74.83

83.05

 Binding

94.59

46.05

61.95

91.67

45.45

60.77

100.00

47.10

64.04

Total

93.31

66.39

77.58

92.47

65.08

76.40

94.38

68.08

79.10

Using sentence simplification and referential relations

 Simple event

91.17

78.33

84.27

91.10

78.74

84.47

91.26

77.86

84.03

 Binding

90.73

61.84

73.55

85.71

57.02

68.49

98.98

70.29

82.20

Total

91.06

73.52

81.36

89.63

71.60

79.61

92.89

76.01

83.61

  1. Performance is reported in terms of (P)recision/(R)ecall/(F)-score. The third part is reproduced from the second part of Table 4. “Basic patterns” = using pattern templates for argument realization and pattern templates with null argument to generate patterns.