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Table 3 Feature comparison among PESCADOR, iHOP, STRING and AliBaba.

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