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J Am Med Inform Assoc 17:524-527 doi:10.1136/jamia.2010.003939
  • Research paper

High accuracy information extraction of medication information from clinical notes: 2009 i2b2 medication extraction challenge

Table 3

Final evaluation scores for NER and relationship classification (reference to appendix table 3, available online only)

Exact Inexact
Precision Recall F-score Precision Recall F-score
Horizontal Med-entry System-level 0.8962 0.8202 0.8565 0.9033 0.8010 0.8490
Patient-level 0.8962 0.8138 0.8488 0.9028 0.7938 0.8390
Vertical Drug System-level 0.9085 0.8598 0.8835 0.9289 0.8777 0.9026
Patient-level 0.9087 0.8588 0.8798 0.9322 0.8765 0.8996
Dosage System-level 0.9189 0.8678 0.8926 0.9317 0.8860 0.9083
Patient-level 0.9125 0.8646 0.8815 0.9254 0.8803 0.8959
Mode System-level 0.9073 0.8915 0.8994 0.9090 0.8780 0.8932
Patient-level 0.9038 0.8894 0.8906 0.9054 0.8836 0.8868
Frequency System-level 0.9142 0.8795 0.8965 0.9236 0.8346 0.8768
Patient-level 0.9144 0.8774 0.8912 0.9281 0.8509 0.8799
Duration System-level 0.5604 0.3709 0.4464 0.6380 0.4092 0.4986
Patient-level 0.4962 0.3805 0.4104 0.5634 0.4489 0.4700
Reason System-level 0.6687 0.3319 0.4436 0.6654 0.3231 0.4350
Patient-level 0.5873 0.3571 0.4149 0.6106 0.3695 0.4234

  • NER, name entity recognition.

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