نتایج جستجو برای: gillespie algorithm
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Volume Three. (1942-43.) Published for the Honyman Gillespie Trust by Oliver and Boyd, Edinburgh. Pp. xl plus 387. Illustrated. Price, 15s. This volume contains thirty-two lectures delivered in 1942-43 by a team of specialists under a grant from the Trustees of the late Mrs. Honyman Gillespie, the delay in publishing being due to paper shortage. The subjects^ are varied and cover a wide field, ...
Data gathered with the Dynamic Albedo of Neutron (DAN) instrument onboard rover Curiosity were analyzed for variations in subsurface neutron flux and tested for possible correlation with local geological context. A special DAN observation campaign was executed, in which 18 adjacent DAN active measurements were acquired every 0.75–1.0m to search for the variations of subsurface hydrogen content ...
In this paper we study the intrinsic noise effect on the switching behavior of a simple genetic circuit corresponding to the genetic toggle switch model. The numerical results obtained from a noisy mean-field model are compared to those obtained from the stochastic Gillespie simulation of the corresponding system of chemical reactions. Our results show that by using a two step reaction approach...
In this article we consider a new derivation mode for generalized communicating P systems (GCPS) corresponding to the functioning of population protocols (PP) and based on the sequential derivation mode and a fairness condition that permits to ensure a particular sequence of configurations. We show that PP can be seen as a particular variant of GCPS. We also consider several stochastic evolutio...
We explore two different threading approaches on a graphics processing unit (GPU) exploiting two different characteristics of the current GPU architecture. The fat thread approach tries to minimise data access time by relying on shared memory and registers potentially sacrificing parallelism. The thin thread approach maximises parallelism and tries to hide access latencies. We apply these two a...
The software package netepi provided at m-files for these projects consists of scripts that will simulate the stochastic process models of disease dynamics as described in the lecture Lecture.pdf. All simulations start with exactly one infectious host while all other hosts are susceptible. The code has been written in such a way that it should be easy to understand and modify. In particular, th...
Internal and external fluctuations, such as channel noise and synaptic noise, contribute to the generation of spontaneous action potentials in neurons. Many different Langevin approaches have been proposed to speed up the computation but with waning accuracy especially at small channel numbers. We apply a generating function approach to the master equation for the ion channel dynamics and furth...
Abstract. A practical introduction to stochastic modelling of reaction-diffusion processes is presented. No prior knowledge of stochastic simulations is assumed. The methods are explained using illustrative examples. The article starts with the classical Gillespie algorithm for the stochastic modelling of chemical reactions. Then stochastic algorithms for modelling molecular diffusion are given...
INTRODUCTION Accurately relating the physiological outcome of a cell to the molecular events, based on an in silico analysis of intracellular networks, requires not only a precise knowledge of the network, but also an appropriate simulation technique. Traditionally, the methods used to temporally evolve intracellular networks have been deterministic in nature. However, deterministic methods can...
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