A generalizable NLP framework for fast development of pattern-based biomedical relation extraction systems

BMC Bioinformatics

Table 4 Evaluation results on the whole, abstract, and full paper collections from the development set of BioNLP-ST 2011 GE task

	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

ISSN: 1471-2105