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检索条件"主题词=Gillespie Algorithm"
113 条 记 录,以下是11-20 订阅
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gillespie eco-evolutionary models (GEMs) reveal the role of heritable trait variation in eco-evolutionary dynamics
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ECOLOGY AND EVOLUTION 2016年 第4期6卷 935-945页
作者: DeLong, John P. Gibert, Jean P. Univ Nebraska Sch Biol Sci Lincoln NE 68588 USA
Heritable trait variation is a central and necessary ingredient of evolution. Trait variation also directly affects ecological processes, generating a clear link between evolutionary and ecological dynamics. Despite t... 详细信息
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A gillespie-based Computational Model for Integrating Event-driven and Multi-Agent Based Simulation  14
A Gillespie-based Computational Model for Integrating Event-...
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14th International Conference on Autonomous Agents and Multiagent Systems (AAMAS)
作者: Montagna, Sara Omicini, Andrea Pianini, Danilo Univ Bologna Alma Mater Studiorum Via Sacchi 3 I-47521 Cesena Italy
Based on two intuitions - (i) event-driven systems and multi-agent systems are two computational paradigms that are amenable of a coherent interpretation within a unique conceptual framework;(ii) integrating the two s... 详细信息
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Lattice Microbes: High-Performance Stochastic Simulation Method for the Reaction-Diffusion Master Equation
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JOURNAL OF COMPUTATIONAL CHEMISTRY 2013年 第3期34卷 245-255页
作者: Roberts, Elijah Stone, John E. Luthey-Schulten, Zaida Univ Illinois Dept Chem Urbana IL 61801 USA Univ Illinois Ctr Phys Living Cells Urbana IL 61801 USA Univ Illinois Beckman Inst Urbana IL 61801 USA
Spatial stochastic simulation is a valuable technique for studying reactions in biological systems. With the availability of high-performance computing (HPC), the method is poised to allow integration of data from str... 详细信息
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Stochastic simulation of quorum sensing in Vibrio fischeri based on P System
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EVOLVING SYSTEMS 2019年 第2期10卷 167-177页
作者: Ben Ali, Yamina Mohamed Tazir, Khaira Univ Badji Mokhtar Dept Comp Sci BP 12 Annaba 23000 Algeria
Inspiration from nature and especially from biology is up today a multidisciplinary challenge where biologists aim to exploit competences' of a computer to understand phenomena of life through simulations and wher... 详细信息
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Solving the problem of negative populations in approximate accelerated stochastic simulations using the representative reaction approach
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JOURNAL OF COMPUTATIONAL CHEMISTRY 2013年 第5期34卷 394-404页
作者: Kadam, Shantanu Vanka, Kumar Natl Chem Lab Div Phys Chem Pune 411008 Maharashtra India
Methods based on the stochastic formulation of chemical kinetics have the potential to accurately reproduce the dynamical behavior of various biochemical systems of interest. However, the computational expense makes t... 详细信息
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Simulation-free estimation of reaction propensities in cellular reactions and gene signaling networks
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COMPUTERS & CHEMICAL ENGINEERING 2016年 87卷 154-163页
作者: Yenkie, K. M. Diwekar, U. M. Linninger, A. A. Univ Illinois Dept Bioengn Chicago IL USA Vishwamitra Res Inst CUSTOM Crystal Lake IL USA
Classical reaction kinetics based on deterministic rates laws are not valid for the description of cellular events in which the small number of molecules introduces stochasticity with discrete instead of continuous st... 详细信息
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Modeling framework for membrane computing in biological systems: Evaluation with a case study
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JOURNAL OF COMPUTATIONAL SCIENCE 2014年 第2期5卷 137-143页
作者: Muniyandi, Ravie Chandren Zin, Abdullah Mohd Univ Kebangsaan Malaysia Fac Technol & Informat Sci Res Ctr Software Technol & Management SOFTAM Bangi 43600 Selangor Malaysia
Membrane computing can represent the structures and behaviors of biological systems while considering their characteristics. This paper proposes a modeling framework for membrane computing in biological systems to pro... 详细信息
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Queueing Theory-Based Perspective of the Kinetics of "Channeled" Enzyme Cascade Reactions
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ACS CATALYSIS 2018年 第11期8卷 10721-10731页
作者: Tsitkov, Stanislav Pesenti, Theo Palacci, Henri Blanchet, Jose Hess, Henry Columbia Univ Dept Biomed Engn New York NY 10027 USA Ecole Super Phys & Chim Ind Ville Paris F-75231 Paris 05 France Stanford Univ Management Sci & Engn Palo Alto CA 94305 USA
Queueing approaches can capture the stochastic dynamics of chemical reactions and provide a more accurate picture of the reaction kinetics than coupled differential equations in situations where the number of molecule... 详细信息
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AESS: Accelerated Exact Stochastic Simulation
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COMPUTER PHYSICS COMMUNICATIONS 2011年 第12期182卷 2580-2586页
作者: Jenkins, David D. Peterson, Gregory D. Univ Tennessee Knoxville TN 37996 USA
The Stochastic Simulation algorithm (SSA) developed by gillespie provides a powerful mechanism for exploring the behavior of chemical systems with small species populations or with important noise contributions. Gene ... 详细信息
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Coupling sample paths to the thermodynamic limit in Monte Carlo estimators with applications to gene expression
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JOURNAL OF COMPUTATIONAL PHYSICS 2017年 346卷 1-13页
作者: Levien, Ethan Bressloff, Paul C. Univ Utah Dept Math Salt Lake City UT 84112 USA
Many biochemical systems appearing in applications have a multiscale structure so that they converge to piecewise deterministic Markov processes in a thermodynamic limit. The statistics of the piecewise deterministic ... 详细信息
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