Sequence-based prediction of protein-protein interactions by means of codon usage.
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.
Najafabadi
Hamed Shateri
HS
Institute of Parasitology, McGill University, Lakeshore Road, Ste, Anne de Bellevue, Montreal, Quebec H9X 3V9, Canada. hamed.shaterinajafabadi@mail.mcgill.ca
Salavati
Reza
R
D000595:Amino Acid Sequence; D000818:Animals; D003062:Codon; D004926:Escherichia coli / Q000235:genetics / Q000378:metabolism; D010963:Plasmodium falciparum / Q000235:genetics / Q000378:metabolism; D025941:Protein Interaction Mapping; D012441:Saccharomyces cerevisiae / Q000235:genetics / Q000378:metabolism; D012680:Sensitivity and Specificity; D020539:Sequence Analysis, Protein
D003062:Codon