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Table 5 The effect of using the BANNER entity tagger compared to gold-standard entities on the performance (precision, recall and F-score) of AkanePPI trained on AIMed.

From: A realistic assessment of methods for extracting gene/protein interactions from free text

  (A) B H I L
Precision:      
With gold-standard entities 57.0 29.2 61.5 60.2 69.6
With BANNER 34.3 23.8 26.8 13.0 39.8
Δ precision 22.7 5.4 34.7 47.2 29.8
Recall:      
With gold-standard entities 74.0 31.8 44.2 32.5 23.8
With BANNER 64.2 30.2 41.1 24.5 27.4
Δ recall 9.8 1.7 3.1 8.0 -3.7
F-score:      
With gold-standard entities 64.4 30.5 51.4 42.2 35.4
With BANNER 44.7 26.6 32.4 17.0 32.5
Δ F-score 19.7 3.8 19.0 25.2 3.0
  1. Corpus abbreviations are as follows: A = AIMed; B = BioInfer; H = HPRD50; I = IEPA; L = LLL.