BIOVERSE: enhancements to the framework for structural, functional and contextual modeling of proteins and proteomes. - Jason E. McDermott; Michal Guerquin; Zachary Frazier; Aaron N. Chang; Ram Samudrala (Nucleic Acids Res., 2005)

INTEGRATOR: interactive graphical search of large protein interactomes over the Web. - Aaron N. Chang; Jason E. McDermott; Zachary Frazier; Michal Guerquin; Ram Samudrala (BMC Bioinform., 2006)

A Computational Approach to Increase Time Scales in Brownian Dynamics-Based Reaction-Diffusion Modeling. - Zachary Frazier; Frank Alber (J. Comput. Biol., 2012)

Simulating cryo electron tomograms of crowded cell cytoplasm for assessment of automated particle picking. - Long Pei; Min Xu; Zachary Frazier; Frank Alber (BMC Bioinform., 2016)