My scientific research interests and activities are primarily focused on (1)
developing a theoretical understanding of protein-protein and protein-peptide recognition
(2) developing computational methods to predict and explain protein-protein and
protein-peptide interactions and (3) applying computational methods to identify and
optimize peptide-based and peptide-derived drug leads. 

Additionally, I am interested in exploring and understanding the relationship between
modern empirical science and the philosophy of Aristotle and St. Thomas Aquinas. 

Professor Audie was awarded tenure by the Board of Trustees in May 2013. 

B.S. Bioengineering, Hofstra University (1995) M.S. Biomedical Engineering, University of
Connecticut (2001) Ph.D. Biophysics, SUNY Stony Brook (2006) 



Advances in the Prediction of Protein-Peptide Binding Affinities: Implications for Peptide-Based Drug Discovery (with Jon Swanson), Chemistry Faculty Publications (2013)

Peptides hold great promise as novel medicinal and biologic agents, and computational methods can help...



The Synergistic Use of Computation, Chemistry and Biology to Discover Novel Peptide-Based Drugs: The Time is Right (with C. Boyd), Chemistry Faculty Publications (2010)

The case for peptide-based drugs is compelling. Due to their chemical, physical and conformational diversity,...



Continued Development of an Empirical Function for Predicting and Rationalizing Protein–Protein Binding Affinities, Chemistry Faculty Publications (2009)

Here we summarize recent work on the continued development of our fast and simple empirical...



Development and Validation of an Empirical Free Energy Function for Calculating Protein–Protein Binding Free Energy Surfaces, Chemistry Faculty Publications (2009)

In a previous paper, we described a novel empirical free energy function that was used...



A Novel Empirical Free Energy Function That Explains And Predicts Protein–Protein Binding Affinities (with Suzanne Scarlata), Chemistry Faculty Publications (2007)

A free energy function can be defined as a mathematical expression that relates macroscopic free...