491 citations · 3.8k across the 67 of their papers we have counts for
4 papers · 1 filter
Eliminating fast reactions in stochastic simulations of biochemical networks: a bistable genetic switch
M. J. Morelli, R. J. Allen, S. Tanase-Nicola +1
In many stochastic simulations of biochemical reaction networks, it is desirable to ``coarse-grain'' the reaction set, removing fast reactions while retaining the correct system dy…
Reaction coordinates for the flipping of genetic switches
M. J. Morelli, S. Tanase-Nicola, R. J. Allen +1
We present a detailed analysis, based on the Forward Flux Sampling (FFS) simulation method, of the switching dynamics and stability of two models of genetic toggle switches, consis…
Regulatory control and the costs and benefits of biochemical noise
Sorin Tanase-Nicola, Pieter Rein ten Wolde
Experiments in recent years have vividly demonstrated that gene expression can be highly stochastic. How protein concentration fluctuations affect the growth rate of a population o…
An allosteric model of KaiC phosphorylation
Jeroen S. van Zon, David K. Lubensky, Pim R. H. Altena +1
In a recent series of ground-breaking experiments, Nakajima et al. [Science 308, 414-415 (2005)] showed that the three cyanobacterial clock proteins KaiA, KaiB, and KaiC are suffic…