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Interactions between genes and gene products give rise to complex circuits that enable cells to process information and respond to external signals. Theoretical studies often describe these interactions using continuous, stochastic, or logical approaches. We propose a new modeling framework for gene regulatory networks, that combines the intuitive appeal of(More)
Weakly activated signaling cascades can be modeled as linear systems. The input-to-output transfer function and the internal gain of a linear system, provide natural measures for the propagation of the input signal down the cascade and for the characterization of the final outcome. The most efficient design of a cascade for generating sharp signals, is(More)
The concept of robustness of regulatory networks has received much attention in the last decade. One measure of robustness has been associated with the volume of the feasible region, namely, the region in the parameter space in which the system is functional. In this paper, we show that, in addition to volume, the geometry of this region has important(More)
This paper studies aspects of the dynamics of a conventional mechanism of ligand-receptor interactions, with a focus on the stability and location of steady-states. A theoretical framework is developed, which is based upon the rich and deep formalism of irreducible biochemical networks. When represented in this manner, the mass action kinetics of(More)
In this paper we will consider a network of vehicles exchanging information among themselves with the intention of achieving a specified polygonal formation. A stochastic model for information transmission and reception is considered , allowing for the randomly breaking of the communication links among the vehicles. The network achieves the formation(More)
This contribution provides an overview of our work on modelling biological processes focussing on the example of programmed cell death, also called apoptosis. Apoptosis is a molecular programme present in all cells of multi-cellular organisms. It is crucial during development and for cell homoeostasis in the adult. Misregu-lation is implicated in severe(More)
In this paper, the study of the class of biochemical systems known as zero deficiency networks is extended to the case of time-varying kinetic parameters. We show that the resulting class of nonlinear systems with inputs satisfies a notion of input-to-state stability uniformly over a set of parameters. In particular, the input-to-state stability estimates(More)
The segment polarity gene family, and its gene regulatory network, is at the basis of Drosophila embryonic development. The network's capacity for generating and robustly maintaining a specific gene expression pattern has been investigated through mathematical modelling. The models have provided several useful insights by suggesting essential network links,(More)