Sensitivity Analysis (SA) provides techniques which can be used to identify the parameters which have the greatest influence on the results obtained from a model. Classical SA methods apply to deterministic simulations of ODE models. We extend these to stochastic simulations and consider the analysis of models with bifurcation points and bistable behaviour. We consider local, global and screeni...

In this paper we present a quantified model of the synthesis of pre-rRNAs in yeast. The chemical kinetics simulation software Dizzy has been used as both the modelling and simulation framework of our study. The simulations have been used to investigate the mechanism of co-transcriptional cleavage which can occur during the synthesis of prerRNAs. Throughout the paper we emphasise the strong role...

Gene transcription models must take account of intrinsic stochasticity. The Chemical Master Equation framework is based on modelling assumptions that are highly appropriate for this context, and the Stochastic Simulation Algorithm (also known as Gillespie’s algorithm) allows for practical simulations to be performed. However, for large networks and/or fast reactions, such computations can be pr...

In this paper we consider a model for different sorting of receptors of Fibroblast Growth Factor via the endocytotic pathway. In order to accurately model the relocation in the different compartments of the cell by the ligand-receptor complex, we use the stochastic version of Bioambients. The stochastic simulation is carried out using BAM (BioAmbient Machine), which is a Java implementation of ...

In this paper, we introduce a multiscale stochastic simulation algorithm (MSSA) which makes use of Gillespie s stochastic simulation algorithm (SSA) together with a new stochastic formulation of the partial equilibrium assumption (PEA). This method is much more efficient than SSA alone. It works even with a very small population of fast species. Implementation details are discussed, and an appl...

__________________________________________ * Currently affiliated with Microsoft Corporation. ABSTRACT We showed in [1] that penalizing long-term reverberation energy is more effective than maximizing the signal-to-reverberation ratio (SRR) for improving audible quality and automatic speech recognition (ASR) accuracy. Using this knowledge we propose a blind approach to speech dereverberation th...

The capability of membrane computing to deal with distributed and parallel computing models, allows it to characterize the structure and processes of biological systems. With this advantage, membrane computing provides an alternative modelling approach to conventional methods such as ordinary differential equations, primarily in preserving the discrete and nondeterministic behavior of biologica...

The isolation of the Hawaiian archipelago has resulted in a fauna that shows high levels of endemism. I examined the role of lifestyle, as inoltyferred from web-building versus non-web-building behavior, in dictating the rate of differentiation and species formation within a lineage of spiders in the genus Tetragnatha from the Hawaiian Islands. This genus comprises a group of morphologically, e...

Parker MJ, Gillespie LD, Gillespie WJ. Hip protectors for preventing hip fractures in the elderly. Cochrane Database Syst Rev 2004;(3):CD001255. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ...