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Table 3 Summary of second experiment

From: Comparison of MetaMap and cTAKES for entity extraction in clinical notes

Diseases

Number of patients

Evaluation

Annotations

MetaMap

cTAKES

MetaMap

cTAKES

Recall

Precision

F-score

Recall

Precision

F-score

Hypertension

325

336

340

0.99

0.96

0.98

0.99

0.95

0.97

Diabetesa

259

254

266

0.89

0.91

0.90

0.92

0.89

0.91

Atherosclerotic Cardiovascular Disease (CAD)a

181

130

205

0.60

0.83

0.69

0.92

0.81

0.87

Congestive Heart Failure (CHF)

172

175

183

0.89

0.87

0.88

0.92

0.86

0.89

Hypercholesterolemiaa

172

159

146

0.88

0.96

0.92

0.81

0.96

0.88

Obstructive Sleep Apnea (OSA)

127

105

102

0.78

0.94

0.85

0.76

0.94

0.84

Osteoarthritis (OA)

87

76

61

0.76

0.87

0.81

0.67

0.95

0.78

Depressiona

83

109

116

0.93

0.706

0.802

0.99

0.71

0.82

Asthma

81

83

92

0.93

0.90

0.91

1.00

0.88

0.94

Gastroesophageal Reflux Disease (GERD)

76

83

85

0.97

0.89

0.93

0.99

0.88

0.93

Gallstones/Cholecystectomya

74

65

68

0.865

0.99

0.92

0.89

0.97

0.93

Gout

56

58

58

0.98

0.95

0.96

0.98

0.95

0.96

Peripheral Vascular Disease (PVD)

37

37

32

0.97

0.97

0.97

0.84

0.97

0.90

Venous Insufficiencya

21

27

30

0.905

0.704

0.792

1

0.7

0.824

AVERAGE

   

0.88

0.89

0.88

0.91

0.89

0.89

  1. The values improved are in bold
  2. aDiseases formed by two or more UMLS concepts