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PEPPI (Pipeline for the Extraction of Predicted Protein-protein Interactions) is a computational program for protein-protein interaction (PPI) prediction. Given a pair of protein amino acid sequences, PEPPI predicts the likelihood of direct, physical interaction for those sequences through several independent prediction methods, including protein structual homology by multimeric threading, protein sequence homology by BLAST search through high-throughput experimental data, functional association from the STRING database, and machine learning-based classification. Scores from each of these approaches are combined through a naive Bayesian consensus model into a final likelihood ratio expressing the probability of interaction relative to the probability of non-interaction.

Note: PEPPI is efficiently implemented for the modeling of proteome-wide interaction networks; for this purpose we recommend users utilize the standalone package below. This webserver limits users to one pair of proteins interacting at a time.

PEPPI online Server (An example of PEPPI output):



PEPPI Download



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