Sequence-based prediction of protein-protein interactions by means of codon usage.

Institute of Parasitology, McGill University, Lakeshore Road, Ste, Anne de Bellevue, Montreal, Quebec H9X 3V9, Canada. hamed.shaterinajafabadi@mail.mcgill.ca

We introduce a novel approach to predict interaction of two proteins solely by analyzing their coding sequences. We found that similarity in codon usage is a strong predictor of protein-protein interactions and, for high specificity values, is as sensitive as the most powerful current prediction methods. Furthermore, combining codon usage with other predictors results in a 75% increase in sensitivity at a precision of 50%, compared to prediction without considering codon usage.

PMID: 18501006 [PubMed - indexed for MEDLINE]

PMCID: PMC2441473