Unbiased Rare Event Sampling in Spatial Stochastic Systems Biology Models Using a Weighted Ensemble of Trajectories

Rory M. Donovan; Jose-Juan Tapia; Devin P. Sullivan; James R. Faeder; Robert F. Murphy; Markus Dittrich; Daniel M. Zuckerman

doi:10.1371/journal.pcbi.1004611

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Research Article

Unbiased Rare Event Sampling in Spatial Stochastic Systems Biology Models Using a Weighted Ensemble of Trajectories

Rory M. Donovan,

Affiliations Joint CMU-Pitt Ph.D. Program in Computational Biology, Pittsburgh, Pennsylvania, United States of America, Department of Computational and Systems Biology, School of Medicine, University of Pittsburgh, Pittsburgh, Pennsylvania, United States of America
⨯
Jose-Juan Tapia,

Affiliations Joint CMU-Pitt Ph.D. Program in Computational Biology, Pittsburgh, Pennsylvania, United States of America, Department of Computational and Systems Biology, School of Medicine, University of Pittsburgh, Pittsburgh, Pennsylvania, United States of America
⨯
Devin P. Sullivan,

Affiliations Joint CMU-Pitt Ph.D. Program in Computational Biology, Pittsburgh, Pennsylvania, United States of America, Computational Biology Department, School of Computer Science, Carnegie Mellon University, Pittsburgh, Pennsylvania, United States of America
⨯
James R. Faeder,

Affiliation Department of Computational and Systems Biology, School of Medicine, University of Pittsburgh, Pittsburgh, Pennsylvania, United States of America
⨯
Robert F. Murphy,

Affiliation Computational Biology Department, School of Computer Science, Carnegie Mellon University, Pittsburgh, Pennsylvania, United States of America
⨯
Markus Dittrich,

Affiliations Department of Computational and Systems Biology, School of Medicine, University of Pittsburgh, Pittsburgh, Pennsylvania, United States of America, Pittsburgh Supercomputing Center, Pittsburgh, Pennsylvania, United States of America
⨯
Daniel M. Zuckerman

* E-mail: ddmmzz@pitt.edu

Affiliation Department of Computational and Systems Biology, School of Medicine, University of Pittsburgh, Pittsburgh, Pennsylvania, United States of America
⨯

Unbiased Rare Event Sampling in Spatial Stochastic Systems Biology Models Using a Weighted Ensemble of Trajectories

Rory M. Donovan,
Jose-Juan Tapia,
Devin P. Sullivan,
James R. Faeder,
Robert F. Murphy,
Markus Dittrich,
Daniel M. Zuckerman

Published: February 4, 2016
https://doi.org/10.1371/journal.pcbi.1004611

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