Discovery of Protein-Protein Interactions Using a Combination of Linguistic, Statistical and Graphical Information

The rapid publication of important research in the biomedical literature makes it increasingly difficult for researchers to keep current with significant work in their area of interest. This paper reports a scalable method for the discovery of protein-protein interactions in Medline abstracts, using a combination of text analytics, statistical analysis and a set of easily implemented rules. Using a collection of 564 abstracts describing protein interactions, a precision of 0.92 and a recall on 0.84 were obtained. Applying similar techniques to 12,300 abstracts, a precision of 0.61 and a recall of 0.90 were obtained, (f = 0.72) and when allowing for two-hop and three-hop relations discovered by graphical analysis, the precision could be extended to 0.82.

By: James W. Cooper, Aaron Kershenbaum

Published in: RC23278 in 2004


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