Table 4 Effect of individual stop-word lists on F-score.
From: Recognition of chemical entities: combining dictionary-based and grammar-based approaches
| Â | Baseline | Basic English | PubMed stop words | Jochem stop words | CHEMDNER guidelines | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Resource | P | R | F | P | R | F | P | R | F | P | R | F | P | R | F |
ChEBI | 28.3 | 40.6 | 33.4 | 69.0 | 40.3 | 50.9 | 63.0 | 40.3 | 49.2 | 28.5 | 40.1 | 33.3 | 29.3 | 40.6 | 34.0 |
ChEMBL | 87.9 | 18.7 | 30.8 | 87.9 | 18.7 | 30.8 | 87.9 | 18.7 | 30.8 | 88.8 | 18.7 | 30.9 | 87.9 | 18.7 | 30.8 |
ChemSpider | 65.4 | 39.0 | 48.9 | 74.4 | 38.8 | 51.0 | 65.3 | 38.8 | 48.7 | 69.3 | 38.6 | 49.6 | 67.9 | 39.0 | 49.5 |
DrugBank | 63.0 | 17.2 | 27.0 | 63.0 | 17.2 | 27.0 | 63.0 | 17.2 | 27.0 | 78.1 | 17.1 | 28.1 | 63.1 | 17.2 | 27.0 |
HMDB | 53.2 | 34.5 | 41.8 | 74.6 | 34.4 | 47.1 | 72.6 | 34.4 | 46.7 | 55.7 | 34.0 | 42.2 | 55.2 | 34.5 | 42.5 |
NPC | 46.8 | 26.7 | 34.0 | 47.6 | 26.5 | 34.0 | 46.6 | 26.5 | 33.7 | 52.2 | 26.7 | 35.3 | 53.3 | 26.7 | 35.6 |
TTD | 43.9 | 14.7 | 22.1 | 64.9 | 14.5 | 23.7 | 66.0 | 14.5 | 23.8 | 50.6 | 14.7 | 22.8 | 43.9 | 14.7 | 22.1 |
PubChem | 17.4 | 59.0 | 26.9 | 44.5 | 58.7 | 50.6 | 42.4 | 58.6 | 49.2 | 18.9 | 58.3 | 28.5 | 17.9 | 59.0 | 27.4 |
Jochem | 64.2 | 52.5 | 57.8 | 65.2 | 52.5 | 58.2 | 64.2 | 52.5 | 57.8 | 64.1 | 52.5 | 57.7 | 67.1 | 52.5 | 58.9 |
UMLS | 37.7 | 51.1 | 43.4 | 45.4 | 50.8 | 43.6 | 38.0 | 51.1 | 43.6 | 40.0 | 50.8 | 44.9 | 42.4 | 51.1 | 46.4 |
ChEBI | 10.4 | 16.6 | 12.8 | 21.0 | 16.6 | 18.5 | 21.0 | 16.6 | 18.5 | 10.8 | 16.4 | 13.1 | 11.6 | 16.6 | 13.7 |
Family Oscar | 25.1 | 63.2 | 35.9 | 25.4 | 63.0 | 36.2 | 25.3 | 62.9 | 36.1 | 25.7 | 62.7 | 36.4 | 27.7 | 63.2 | 38.5 |
LeadMine | 64.9 | 47.4 | 54.8 | 66.4 | 47.4 | 55.3 | 64.9 | 47.4 | 54.8 | 68.0 | 47.1 | 55.7 | 72.8 | 47.4 | 57.4 |
ChemAxon | 80.9 | 41.8 | 55.1 | 80.9 | 41.8 | 55.1 | 80.9 | 41.8 | 55.1 | 81.1 | 41.7 | 55.1 | 83.3 | 41.8 | 55.5 |