From: PESCADOR, a web-based tool to assist text-mining of biointeractions extracted from PubMed queries
Feature | PESCADOR | iHOP | STRING | AliBaba |
---|---|---|---|---|
Input | PubMed (user selection or query) | Protein/Gene ID | Protein/Gene ID | PubMed (query) |
Biological concepts | Customized | Fixed | Fixed | Fixed |
Literature corpus | Selected PubMed | Whole PubMed | Whole PubMed | Selected PubMed |
Co-occurrence context | Sentence/whole abstract | Sentence | Whole abstract | Sentence |
Target protein display filters | Biological concept; Biointeraction term; Co-occurring pair; Co-occurrence structure. | Co-occurring pair. | Co-occurring pair; Confidence; Degree. | Co-occurring pair; Confidence; Degree. |
Manual validation of co-occurring pairs | Yes | Yes | No | No |
Co-occurrence validation sharing among users | Yes | No | No | No |
Network building | Automatically on-the-fly | Manually stepwise | Automatically on-the-fly | Automatically on-the-fly |