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Table 4 Results on the Quaero Training for PER and NER

From: SIFR annotator: ontology-based semantic annotation of French biomedical text and clinical notes

 

Plain Entity Recognition [PER]

Normalized Entity Recognition [NER]

P

R

F1

P

R

F1

P

R

F1

P

R

F1

 

EMEA

EMEA adapted

EMEA

EMEA adapted

BSL

64.0

51.7

57.2

63.1

59.3

61.2

49.8

30.9

37.8

48.6

35.1

40.8

DAA

58.3

51.6

54.8

57.5

59.3

58.4

45.0

30.7

36.2

44.0

34.8

38.8

DBP

70.8

56.2

62.6

69.2

64.0

66.7

54.21

31.0

39.4

54.1

35.36

42.8

Avg.

58.7

47.3

51.1

Not Available

33.3

46.0

34.7

Not Available

Med.

73.1

55.9

61.3

19.1

56.5

25.2

 

MEDLINE

MEDLINE adapted

MEDLINE

MEDLINE adapted

BSL

57.5

49.0

52.9

55.2

55.8

55.5

44.0

30.5

36.0

43.8

35.5

39.2

DAA

67.9

49.0

56.9

62.2

55.8

60.2

52.9

30.5

38.7

52.7

35.5

42.4

DBP

64.7

54.0

58.9

62.0

61.1

61.5

49.5

30.4

37.6

49.25

35.4

41.2

Avg.

53.3

39.6

44.0

Not Available

32.1

46.1

34.0

Not Available

Med.

64.9

40.0

48.7

29.5

59.0

22.8

  1. Evaluation on both the EMEA and MEDLINE sub corpora for the original Quaero corpus and our adapted Quaero corpus. For the original corpora, we report on the average and median results of the systems participating in CLEF eHealth 2015 Task 1. Values in bold correspond to the best results in each category