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Simulation and inference algorithms for stochastic biochemical reaction networks: from basic concepts to state-of-the-art
Stochasticity is a key characteristic of intracellular processes such as gene regulation and
chemical signalling. Therefore, characterizing stochastic effects in biochemical systems is …
chemical signalling. Therefore, characterizing stochastic effects in biochemical systems is …
[BUKU][B] Stochastic analysis of biochemical systems
DF Anderson, TG Kurtz - 2015 - Springer
This book, as with others in the series, is intended to provide supplementary material for
courses in probability or stochastic processes. The mathematical focus is on counting …
courses in probability or stochastic processes. The mathematical focus is on counting …
How big is an outbreak likely to be? Methods for epidemic final-size calculation
Epidemic models have become a routinely used tool to inform policy on infectious disease.
A particular interest at the moment is the use of computationally intensive inference to …
A particular interest at the moment is the use of computationally intensive inference to …
[BUKU][B] Modeling and inverse problems in the presence of uncertainty
HT Banks, S Hu, WC Thompson - 2014 - books.google.com
Modeling and Inverse Problems in the Presence of Uncertainty collects recent research—
including the authors' own substantial projects—on uncertainty propagation and …
including the authors' own substantial projects—on uncertainty propagation and …
Product-form stationary distributions for deficiency zero chemical reaction networks
We consider stochastically modeled chemical reaction systems with mass-action kinetics
and prove that a product-form stationary distribution exists for each closed, irreducible …
and prove that a product-form stationary distribution exists for each closed, irreducible …
Multilevel Monte Carlo for continuous time Markov chains, with applications in biochemical kinetics
We show how to extend a recently proposed multilevel Monte Carlo approach to the
continuous time Markov chain setting, thereby greatly lowering the computational complexity …
continuous time Markov chain setting, thereby greatly lowering the computational complexity …
An efficient finite difference method for parameter sensitivities of continuous time Markov chains
DF Anderson - SIAM Journal on Numerical Analysis, 2012 - SIAM
We present an efficient finite difference method for the computation of parameter sensitivities
that is applicable to a wide class of continuous time Markov chain models. The estimator for …
that is applicable to a wide class of continuous time Markov chain models. The estimator for …
An exact stochastic hybrid model of excitable membranes including spatio-temporal evolution
In this paper, we present a mathematical description for excitable biological membranes, in
particular neuronal membranes. We aim to model the (spatio-) temporal dynamics, eg, the …
particular neuronal membranes. We aim to model the (spatio-) temporal dynamics, eg, the …
Stochastic modeling of the chemostat
F Campillo, M Joannides, I Larramendy-Valverde - Ecological Modelling, 2011 - Elsevier
The chemostat is classically represented, at large population scale, as a system of ordinary
differential equations. Our goal is to establish a set of stochastic models that are valid at …
differential equations. Our goal is to establish a set of stochastic models that are valid at …
[BUKU][B] Stochasticity in processes
P Schuster - 2016 - Springer
The theory of probability and stochastic processes is often neglected in the education of
chemists and biologists, although modern experimental techniques allow for investigations …
chemists and biologists, although modern experimental techniques allow for investigations …