Distributing MCell Simulations on the Grid. - Henri Casanova; Thomas M. Bartol; Joel R. Stiles; Francine Berman (Int. J. High Perform. Comput. Appl., 2001)

An MCell model of calcium dynamics and frequency-dependence of calmodulin activation in dendritic spines. - Kevin M. Franks; Thomas M. Bartol; Terrence J. Sejnowski (Neurocomputing, 2001)

Spatially Realistic Computational Physiology: Past, Present and Future. - Joel R. Stiles; W. C. Ford; J. M. Pattillo; Thomas E. Deerinck; Mark H. Ellisman; Thomas M. Bartol; Terrence J. Sejnowski (PARCO, 2003)

A Large Scale Monte Carlo Simulator for Cellular Microphysiology. - Gregory T. Balls; Scott B. Baden; Tilman Kispersky; Thomas M. Bartol; Terrence J. Sejnowski (IPDPS, 2004)

The Virtual Instrument: Support for Grid-Enabled Mcell Simulations. - Henri Casanova; Francine Berman; Thomas M. Bartol; Erhan Gokcay; Terrence J. Sejnowski; Adam Birnbaum; Jack J. Dongarra; Michelle Miller 003; Mark H. Ellisman; Marcio Faerman; Graziano Obertelli; Richard Wolski; et al. (Int. J. High Perform. Comput. Appl., 2004)

Development of a model for microphysiological simulations - Small nodes of ranvier from peripheral nerves of mice reconstructed by electron tomography. - Gina E. Sosinsky; Thomas J. Deerinck; Rocco Greco; Casey H. Buitenhuys; Thomas M. Bartol; Mark H. Ellisman (Neuroinformatics, 2005)

Toward Petascale Simulation of Cellular Microphysiology. - Scott B. Baden; Terrence J. Sejnowski; Thomas M. Bartol; Joel R. Stiles (BIBE, 2007)

Fast Monte Carlo Simulation Methods for Biological Reaction-Diffusion Systems in Solution and on Surfaces. - Rex A. Kerr; Thomas M. Bartol; Boris Kaminsky; Markus Dittrich; Jen-Chien Jack Chang; Scott B. Baden; Terrence J. Sejnowski; Joel R. Stiles (SIAM J. Sci. Comput., 2008)

Modelling Vesicular Release at Hippocampal Synapses. - Suhita Nadkarni; Thomas M. Bartol; Terrence J. Sejnowski; Herbert Levine (PLoS Comput. Biol., 2010)

VolRoverN: Enhancing Surface and Volumetric Reconstruction for Realistic Dynamical Simulation of Cellular and Subcellular Function. - John Edwards 002; Eric Daniel; Justin Kinney; Thomas M. Bartol; Terrence J. Sejnowski; Daniel Johnston; Kristen M. Harris; Chandrajit L. Bajaj (Neuroinformatics, 2014)

Multi-state Modeling of Biomolecules. - Melanie I. Stefan; Thomas M. Bartol; Terrence J. Sejnowski; Mary B. Kennedy (PLoS Comput. Biol., 2014)

MCell. - Thomas M. Bartol; Markus Dittrich; James R. Faeder (Encyclopedia of Computational Neuroscience, 2014)

Deep Learning Moment Closure Approximations using Dynamic Boltzmann Distributions. - Oliver K. Ernst; Tom Bartol; Terrence J. Sejnowski; Eric Mjolsness (CoRR, 2019)

A multi-state model of the CaMKII dodecamer suggests a role for calmodulin in maintenance of autophosphorylation. - Matthew C. Pharris; Neal M. Patel; Tyler G. VanDyk; Thomas M. Bartol; Terrence J. Sejnowski; Mary B. Kennedy; Melanie I. Stefan; Tamara Kinzer-Ursem (PLoS Comput. Biol., 2019)

Interactions between calmodulin and neurogranin govern the dynamics of CaMKII as a leaky integrator. - Mariam Ordyan; Tom Bartol; Mary B. Kennedy; Padmini Rangamani; Terrence J. Sejnowski (PLoS Comput. Biol., 2020)

Physics-based machine learning for modeling stochastic IP3-dependent calcium dynamics. - Oliver K. Ernst; Tom Bartol; Terrence J. Sejnowski; Eric Mjolsness (CoRR, 2021)

Multiscale modeling of presynaptic dynamics from molecular to mesoscale. - Jonathan W. Garcia; Thomas M. Bartol; Terrence J. Sejnowski (PLoS Comput. Biol., 2022)

MCell4 with BioNetGen: A Monte Carlo simulator of rule-based reaction-diffusion systems with Python interface. - Adam Husár; Mariam Ordyan; Guadalupe C. Garcia; Joel G. Yancey; Ali Sinan Saglam; James R. Faeder; Thomas M. Bartol; Mary B. Kennedy; Terrence J. Sejnowski (PLoS Comput. Biol., 2024)

Synaptic Information Storage Capacity Measured With Information Theory. - Mohammad Samavat; Thomas M. Bartol; Kristen M. Harris; Terrence J. Sejnowski (Neural Comput., 2024)