Daniel M. Zuckerman

13 papers Journal 13

Year	Rank	Type	Title / Venue / Authors
2023	J	`jnl`	#COVIDisAirborne: AI-enabled multiscale computational microscopy of delta SARS-CoV-2 in a respiratory aerosol. Int. J. High Perform. Comput. Appl. Abigail C. Dommer, Lorenzo Casalino, Fiona L. Kearns, Mia A. Rosenfeld, Nicholas Wauer, Surl-Hee Ahn, John Russo, A. Sofia F. Oliveira, Clare Morris, Anthony T. Bogetti, Anda Trifan, Alexander Brace, Terra Sztain, Austin Clyde, Heng Ma, S. Chakra Chennubhotla, Hyungro Lee, Matteo Turilli, Syma Khalid, Teresa Tamayo-Mendoza, Matthew Welborn, Anders S. Christensen, Daniel G. A. Smith, Zhuoran Qiao, Sai K. Sirumalla, Michael O'Connor, Frederick R. Manby, Anima Anandkumar, David J. Hardy, James C. Phillips, Abraham C. Stern, Josh Romero, David Clark, Mitchell Dorrell, Tom Maiden, Lei Huang, John D. McCalpin, Christopher J. Woods, Alan Gray, Matt Williams, Bryan Barker, Harinda Rajapaksha, Richard Pitts, Tom Gibbs, John E. Stone, Daniel M. Zuckerman, Adrian J. Mulholland, Thomas F. Miller III, Shantenu Jha, Arvind Ramanathan, Lillian T. Chong, Rommie E. Amaro
2023	J	`jnl`	Quantifying cooperative multisite binding in the hub protein LC8 through Bayesian inference. PLoS Comput. Biol. Aidan B. Estelle, August George, Elisar J. Barbar, Daniel M. Zuckerman
2022	J	`jnl`	Weighted ensemble: Recent mathematical developments. CoRR David Aristoff, J. Copperman, Gideon Simpson, Robert J. Webber, Daniel M. Zuckerman
2020	J	`jnl`	A kinetic mechanism for enhanced selectivity of membrane transport. PLoS Comput. Biol. Paola Bisignano, Michael A. Lee, August George, Daniel M. Zuckerman, Michael Grabe, John M. Rosenberg
2020	J	`jnl`	A systems-biology approach to molecular machines: Exploration of alternative transporter mechanisms. PLoS Comput. Biol. August George, Paola Bisignano, John M. Rosenberg, Michael Grabe, Daniel M. Zuckerman
2020	J	`jnl`	Optimizing Weighted Ensemble Sampling of Steady States. Multiscale Model. Simul. David Aristoff, Daniel M. Zuckerman
2016	J	`jnl`	Unbiased Rare Event Sampling in Spatial Stochastic Systems Biology Models Using a Weighted Ensemble of Trajectories. PLoS Comput. Biol. Rory M. Donovan, José Juan Tapia, Devin P. Sullivan, James R. Faeder, Robert F. Murphy, Markus Dittrich, Daniel M. Zuckerman
2015	J	`jnl`	A proposal for regularly updated review/survey articles: "Perpetual Reviews". CoRR David L. Mobley, Daniel M. Zuckerman
2012	J	`jnl`	Accelerating molecular monte carlo simulations using distance and orientation-dependent energy tables: Tuning from atomistic accuracy to smoothed "coarse-grained" models. J. Comput. Chem. Steven Lettieri, Daniel M. Zuckerman
2011	J	`jnl`	Extending fragment-based free energy calculations with library monte carlo simulation: Annealing in interaction space. J. Comput. Chem. Steven Lettieri, Artem B. Mamonov, Daniel M. Zuckerman
2011	J	`jnl`	Rapid sampling of all-atom peptides using a library-based polymer-growth approach. J. Comput. Chem. Artem B. Mamonov, Xin Zhang, Daniel M. Zuckerman
2009	J	`jnl`	Absolute free energies estimated by combining precalculated molecular fragment libraries. J. Comput. Chem. Xin Zhang, Artem B. Mamonov, Daniel M. Zuckerman
2004	J	`jnl`	Efficient use of nonequilibrium measurement to estimate free energy differences for molecular systems. J. Comput. Chem. F. Marty Ytreberg, Daniel M. Zuckerman