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Table 4 Evaluation results 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
Whole set
 Simple event 92.06 63.42 75.10 92.04 65.61 76.61 92.08 61.05 73.42
  Gene_expression 92.28 64.77 76.12 91.01 66.75 77.02 93.61 62.88 75.23
  Transcription 89.13 49.40 63.57 94.55 57.78 71.72 81.08 39.47 53.10
  Protein_catabolism 94.12 69.57 80.00 93.75 71.43 81.08 100.00 50.00 66.67
  Phosphorylation 98.77 71.43 82.90 96.77 62.50 75.95 100.00 78.13 87.72
  Localization 84.75 66.67 74.63 91.49 70.49 79.63 58.33 50.00 53.85
 Binding 91.51 47.12 62.20 86.96 42.94 57.49 98.98 54.80 70.55
Total 91.92 58.46 71.47 90.65 57.62 70.46 93.53 59.53 72.76
Subset with selected triggers
 Simple event 91.17 78.33 84.27 91.10 78.74 84.47 91.26 77.86 84.03
  Gene_expression 91.18 80.78 85.66 89.93 82.51 86.06 92.48 79.10 85.27
  Transcription 89.13 71.30 79.23 94.55 73.24 82.54 81.08 68.18 74.07
  Protein_catabolism 94.12 72.73 82.05 93.75 71.43 81.08 100.00 100.00 100.00
  Phosphorylation 98.77 74.77 85.11 96.77 65.22 77.92 100.00 81.97 90.09
  Localization 83.05 75.38 79.03 89.36 79.25 84.00 58.33 58.33 58.33
 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.