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Table 3 Evaluation results on the whole, abstract, and full paper collections from the training 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 92.40 67.16 77.78 93.11 66.87 77.84 89.36 68.44 77.52
  Gene_expression 92.27 69.18 79.07 93.01 68.82 79.11 89.86 70.43 78.96
  Transcription 92.43 55.54 69.39 92.88 55.67 69.61 89.66 54.74 67.97
  Protein_catabolism 91.01 71.05 79.80 93.10 71.05 80.60
  Phosphorylation 97.42 77.44 86.29 97.78 76.74 85.99 95.00 82.61 88.37
  Localization 90.43 70.03 78.94 91.24 70.46 79.52 76.92 62.50 68.97
 Binding 90.83 50.77 65.14 90.76 50.68 65.04 91.43 51.61 65.98
Total 92.08 63.10 74.88 92.60 62.57 74.68 89.61 65.83 75.90
Subset with selected triggers
 Simple event 92.29 79.08 85.18 92.98 78.92 85.38 89.36 79.79 84.31
  Gene_expression 92.27 79.85 85.61 93.01 79.25 85.58 89.86 81.94 85.71
  Transcription 92.00 76.52 83.55 92.37 77.93 84.54 89.66 68.42 77.61
  Protein_catabolism 91.01 77.14 83.51 93.10 77.14 84.38
  Phosphorylation 97.42 81.62 88.82 97.78 81.48 88.89 95.00 82.61 88.37
  Localization 90.04 77.04 83.03 90.83 77.65 83.72 76.92 66.67 71.43
 Binding 90.25 70.94 79.44 90.11 70.47 79.09 91.43 75.29 82.58
Total 91.88 77.32 83.97 92.35 76.95 83.95 89.61 79.22 84.09
  1. Performance is reported in terms of (P)recision/(R)ecall/(F)-score.