Computational modeling, formal analysis, and tools for systems biology
E Bartocci, P Lió - PLoS computational biology, 2016 - journals.plos.org
As the amount of biological data in the public domain grows, so does the range of modeling
and analysis techniques employed in systems biology. In recent years, a number of …
and analysis techniques employed in systems biology. In recent years, a number of …
[图书][B] Formal methods for discrete-time dynamical systems
In control theory, complex models of physical processes, such as systems of differential or
difference equations, are usually checked against simple specifications, such as stability …
difference equations, are usually checked against simple specifications, such as stability …
Comparing different ODE modelling approaches for gene regulatory networks
A Polynikis, SJ Hogan, M Di Bernardo - Journal of theoretical biology, 2009 - Elsevier
A fundamental step in synthetic biology and systems biology is to derive appropriate
mathematical models for the purposes of analysis and design. For example, to synthesize a …
mathematical models for the purposes of analysis and design. For example, to synthesize a …
Synthesis of reactive switching protocols from temporal logic specifications
We propose formal means for synthesizing switching protocols that determine the sequence
in which the modes of a switched system are activated to satisfy certain high-level …
in which the modes of a switched system are activated to satisfy certain high-level …
Temporal logic control of discrete-time piecewise affine systems
We present a computational framework for automatic synthesis of a feedback control
strategy for a discrete-time piecewise affine (PWA) system from a specification given as a …
strategy for a discrete-time piecewise affine (PWA) system from a specification given as a …
From cardiac cells to genetic regulatory networks
A fundamental question in the treatment of cardiac disorders, such as tachycardia and
fibrillation, is under what circumstances does such a disorder arise? To answer to this …
fibrillation, is under what circumstances does such a disorder arise? To answer to this …
Falsification of LTL safety properties in hybrid systems
This paper develops a novel approach for the falsification of safety properties given by a
syntactically safe linear temporal logic (LTL) formula ϕ for hybrid systems with nonlinear …
syntactically safe linear temporal logic (LTL) formula ϕ for hybrid systems with nonlinear …
Augmented finite transition systems as abstractions for control synthesis
This work is motivated by the problem of synthesizing switching protocols for continuous
switched systems described by differential or difference equations, in a way that guarantees …
switched systems described by differential or difference equations, in a way that guarantees …
Symbolic models for nonlinear time-delay systems using approximate bisimulations
In this paper we show that incrementally stable nonlinear time-delay systems admit symbolic
models which are approximately equivalent, in the sense of approximate bisimulation, to the …
models which are approximately equivalent, in the sense of approximate bisimulation, to the …