Boolean modeling in systems biology: an overview of methodology and applications

RS Wang, A Saadatpour, R Albert - Physical biology, 2012 - iopscience.iop.org
Mathematical modeling of biological processes provides deep insights into complex cellular
systems. While quantitative and continuous models such as differential equations have been …

Algebraic approach to dynamics of multivalued networks

Z Li, D Cheng - International Journal of Bifurcation and Chaos, 2010 - World Scientific
Using semi-tensor product of matrices, a matrix expression for multivalued logic is proposed,
where a logical variable is expressed as a vector, and a logical function is expressed as a …

A linear representation of dynamics of Boolean networks

D Cheng, H Qi - IEEE Transactions on Automatic Control, 2010 - ieeexplore.ieee.org
A new matrix product, called semi-tensor product of matrices, is reviewed. Using it, a matrix
expression of logic is proposed, where a logical variable is expressed as a vector, a logical …

On pinning controllability of Boolean control networks

J Lu, J Zhong, C Huang, J Cao - IEEE Transactions on …, 2015 - ieeexplore.ieee.org
This technical note presents analytical investigations of reachability and controllability of
Boolean control networks (BCNs) with pinning controllers. Based on semi-tensor product …

On controllability of delayed Boolean control networks

J Lu, J Zhong, DWC Ho, Y Tang, J Cao - SIAM Journal on Control and …, 2016 - SIAM
This paper is devoted to studying the trajectory and state controllability of Boolean control
networks (BCNs) with time delay. In contrast to BCNs without time delay, the dynamics of …

Disturbance decoupling of Boolean control networks

D Cheng - IEEE Transactions on Automatic Control, 2010 - ieeexplore.ieee.org
Disturbance decoupling problem (DDP) of Boolean control networks is considered. Using
semi-tensor product of matrices and the matrix expression of logical functions, a working …

Optimal control of logical control networks

Y Zhao, Z Li, D Cheng - IEEE Transactions on Automatic …, 2010 - ieeexplore.ieee.org
This paper considers the infinite horizon optimal control of logical control networks, including
Boolean control networks as a special case. Using the framework of game theory, the …

Boolean modeling of biological regulatory networks: a methodology tutorial

A Saadatpour, R Albert - Methods, 2013 - Elsevier
Given the complexity and interactive nature of biological systems, constructing informative
and coherent network models of these systems and subsequently developing efficient …

Attractor analysis of asynchronous Boolean models of signal transduction networks

A Saadatpour, I Albert, R Albert - Journal of theoretical biology, 2010 - Elsevier
Prior work on the dynamics of Boolean networks, including analysis of the state space
attractors and the basin of attraction of each attractor, has mainly focused on synchronous …

Controllability of Boolean control networks with time delays in states

F Li, J Sun - Automatica, 2011 - Elsevier
This paper investigates the controllability of Boolean networks with time-invariant delays in
states. After a brief introduction on converting the logic dynamics to discrete time delay …