Table 3 Top 10 tokens from pathway names in representative databases
From: PathNER: a tool for systematic identification of biological pathway mentions in the literature
| Â | BioCarta | KEGG | PID | Reactome | WikiPathways | PO | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
Rank | Token | Freq | Token | Freq | Token | Freq | Token | Freq | Token | Freq | Token | Freq |
#1 | pathway | 6.09% | metabolism | 6.01% | signalling | 3.66% | activation | 1.68% | signalling | 5.38% | pathway | 23.34% |
#2 | signalling | 4.63% | pathway | 3.63% | pathway | 2.56% | signalling | 1.63% | pathway | 4.55% | signalling | 9.52% |
#3 | regulation | 1.79% | signalling | 3.50% | activation | 1.27% | metabolism | 1.18% | metabolism | 3.11% | altered | 3.02% |
#4 | cell | 1.65% | biosynthesis | 3.25% | events | 1.23% | synthesis | 1.06% | regulation | 1.38% | metabolic | 2.88% |
#5 | role | 1.06% | cell | 1.50% | regulation | 1.17% | regulation | 0.95% | cell | 1.31% | mediated | 1.69% |
#6 | receptor | 1.06% | acid | 1.38% | mediated | 1.03% | mediated | 0.90% | receptor | 1.04% | biosynthetic | 1.39% |
#7 | activation | 0.99% | cancer | 1.25% | receptor | 1.02% | transport | 0.86% | activity | 0.83% | degradation | 0.79% |
#8 | kinase | 0.86% | infection | 1.00% | cell | 0.73% | receptor | 0.80% | synthesis | 0.83% | drug | 0.78% |
#9 | gene | 0.73% | disease | 0.88% | metabolism | 0.64% | complex | 0.69% | cycle | 0.83% | factor | 0.78% |
#10 | cycle | 0.66% | degradation | 0.75% | synthesis | 0.63% | receptors | 0.69% | proteins | 0.83% | acid | 0.72% |