Parallel discrete-event simulation of FCFS stochastic queueing networks
PPEALS '88 Proceedings of the ACM/SIGPLAN conference on Parallel programming: experience with applications, languages and systems
Unsynchronized parallel discrete event simulation
Proceedings of the 30th conference on Winter simulation
Exploiting temporal uncertainty in parallel and distributed simulations
PADS '99 Proceedings of the thirteenth workshop on Parallel and distributed simulation
A causality based time management mechanism for federated simulation
Proceedings of the fifteenth workshop on Parallel and distributed simulation
Scalable parallel formulations of the barnes-hut method for n-body simulations
Proceedings of the 1994 ACM/IEEE conference on Supercomputing
Exploiting Temporal Uncertainty in Time Warp Simulations
DS-RT '00 Proceedings of the Fourth IEEE International Workshop on Distributed Simulation and Real-Time Applications
ANSS '07 Proceedings of the 40th Annual Simulation Symposium
A scalable framework for parallel discrete event simulations on desktop grids
GRID '07 Proceedings of the 8th IEEE/ACM International Conference on Grid Computing
A parallel and distributed discrete event approach for spatial cell-biological simulations
ACM SIGMETRICS Performance Evaluation Review
FMSB '08 Proceedings of the 1st international workshop on Formal Methods in Systems Biology
On Parallel Stochastic Simulation of Diffusive Systems
CMSB '08 Proceedings of the 6th International Conference on Computational Methods in Systems Biology
Multi-resolution spatial simulation for molecular crowding
Proceedings of the 40th Conference on Winter Simulation
Regenerative systems: challenges and opportunities for modeling, simulation, and visualization
Proceedings of the Fourth International ICST Conference on Performance Evaluation Methodologies and Tools
Proceedings of the 9th International Conference on Computational Methods in Systems Biology
An efficient parallel stochastic simulation method for analysis of nonviral gene delivery systems
Proceedings of the 9th International Conference on Computational Methods in Systems Biology
Trading Computation Time for Synchronization Time in Spatial Distributed Simulation
PADS '11 Proceedings of the 2011 IEEE Workshop on Principles of Advanced and Distributed Simulation
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The application of parallel and distributed simulation techniques is often limited by the amount of parallelism available in the model. This holds true for large-scale cell-biological simulations, a field that has emerged as data and knowledge concerning these systems increases and biologists call for tools to guide wet-lab experimentation. A promising approach to exploit parallelism in this domain is the integration of spatial aspects, which are often crucial to a model's validity. We describe an optimistic, parallel and distributed variant of the Next-Subvolume Method (NSM), a method that augments the well-known Gillespie Stochastic Simulation Algorithm (SSA) with spatial features. We discuss requirements imposed by this application on a parallel discrete event simulation engine to achieve efficient execution. First results of combining NSM and the grid-inspired simulation system Aurora are shown.