Peter Freddolino

Overview

Titles

Assistant Professor, Department of Biological Chemistry, University of Michigan

Email
petefred@c2b2.columbia.edu

Peter Freddolino is a postdoctoral research scientist in the Tavazoie Lab. He uses both computational and experimental approaches to investigate how cells sense and respond to their environment, focusing on such phenomena as the molecular details of perception and the evolutionary basis for existing regulatory architectures. In the process, he uses a combination of microbial population genetics and systems biology tools, bioinformatic analysis, and molecular and atom-level simulations.

Peter completed his PhD in biophysics and computational biology at the University of Illinois at Urbana-Champaign, working with Klaus Schulten. While there, his research focused on applying all-atom and coarse-grained molecular dynamics simulations to long timescale structural transitions of proteins.

For more information about Peter, visit his webpage at the Tavazoie Lab.

Education History

PhD, University of Illinois at Urbana-Champaign
Biophysics and Computational Biology

BS, California Institute of Technology
Biology (with Honors) 

Publications

Freddolino PL, Goodarzi H, Tavazoie S. Revealing the genetic basis of natural bacterial phenotypic divergence. J Bacteriol. 2014 Feb;196(4):825-39.

Hottes AK, Freddolino PL, Khare A, Donnell ZN, Liu JC, Tavazoie S. Bacterial adaptation through loss of function. PLoS Genet. 2013;9(7):e1003617.

Freddolino PL, Gardner KH, Schulten K. Signaling mechanisms of LOV domains: new insights from molecular dynamics studies. Photochem Photobiol Sci. 2013 Jul;12(7):1158-70.

Freddolino PL, Tavazoie S. The dawn of virtual cell biology. Cell. 2012 Jul 20;150(2):248-50.

Freddolino PL, Goodarzi H, Tavazoie S. Fitness landscape transformation through a single amino acid change in the Rho terminator. PLoS Genet. 2012 May;8(5):e1002744.

Freddolino PL, Tavazoie S. Beyond homeostasis: a predictive-dynamic framework for understanding cellular behavior. Annu Rev Cell Dev Biol. 2012;28:363-84. 

Freddolino PL, Harrison CB, Liu Y, Schulten K. Challenges in protein-folding simulations: timescale, representation, and analysis. Nat Phys. 2010 Oct 1;6(10):751-758.

Freddolino PL, Schulten K. Common structural transitions in explicit-solvent simulations of villin headpiece folding. Biophys J. 2009 Oct 21;97(8):2338-47.

Freddolino PL, Park S, Roux B, Schulten K. Force field bias in protein folding simulations. Biophys J. 2009 May 6;96(9):3772-80.

Freddolino PL, Arkhipov AS, Larson SB, McPherson A, Schulten K. Molecular dynamics simulations of the complete satellite tobacco mosaic virus. Structure. 2006 Mar;14(3):437-49.

Freddolino PL, Kalani MY, Vaidehi N, Floriano WB, Hall SE, Trabanino RJ, Kam VW, Goddard WA 3rd. Predicted 3D structure for the human β2 adrenergic receptor and its binding site for agonists and antagonists. Proc Natl Acad Sci U S A. 2004 Mar 2;101(9):2736-41.

Visit PubMed for a complete listing of publications.