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Genetics, Bioinformatics & Computational Biology (GBCB) Seminar
Speaker: Matt Dyer, GBCB PhD candidate at VT
Title: Computational Prediction of Host-Pathogen Protein-Protein Interaction
Abstract: Infectious diseases such as malaria result in millions of deaths each year. An important aspect of any host-pathogen system is the mechanism by which a pathogen can infect its host. One method of infection is via
protein-protein interactions (PPIs) where pathogen proteins target host proteins. Computational methods for predicting PPIs have been applied only to proteins from the same species. Developing computational methods that identify which PPIs enable a pathogen to infect a host has
great implications in identifying potential targets for therapeutics.
We present a method that integrates known intra-species PPIs with protein domain profiles to predict PPIs between host and pathogen proteins. Given a set of intra-species PPIs, we identify the functional domains in each of the interacting proteins. For every pair of functional domains, we use Bayesian statistics to assess the probability that two proteins with that pair of domains will interact. We apply our method to the Homo sapiens - Plasmodium falciparum
host-pathogen system. Our system predicts 516 PPIs between proteins from these two organisms. We show that human protein pairs we predict to interact with the same Plasmodium protein are close to each other in the human PPI network and that Plasmodium pairs predicted to interact with same human protein are co-expressed in DNA microarray datasets measured during various stages of the Plasmodium life cycle. Finally, we identify functionally enriched sub-networks spanned by the predicted interactions and discuss the plausibility of our predictions.
Public welcome, please come! Refreshments 3:15-3:50 pm,
seminar starts promptly at 4pm.