相关论文: Role of self-loop in cell-cycle network of budding…

The interactions between proteins, DNA, and RNA in living cells constitute molecular networks that govern various cellular functions. To investigate the global dynamical properties and stabilities of such networks, we studied the cell-cycle…

We study the robustness and stability of the yeast cell regulatory network by using a general inhomogeneous discrete model. We find that inhomogeneity, on average, enhances the stability of the biggest attractor of the dynamics and that the…

Discrete dynamical systems in which model components take on categorical values have been successfully applied to biological networks to study their global dynamic behavior. Boolean models in particular have been used extensively. However,…

We study the dynamics of gene activities in relatively small size biological networks (up to a few tens of nodes), e.g. the activities of cell-cycle proteins during the mitotic cell-cycle progression. Using the framework of deterministic…

The cell cycle is a tightly controlled process, yet its underlying genetic network shows marked differences across species. Which of the associated structural features follow solely from the ability to impose the appropriate gene expression…

The deterministic dynamics of randomly connected neural networks are studied, where a state of binary neurons evolves according to a discreet-time synchronous update rule. We give a theoretical support that the overlap of systems' states…

This paper addresses the problem of finding cycles in the state transition graphs of synchronous Boolean networks. Synchronous Boolean networks are a class of deterministic finite state machines which are used for the modeling of gene…

The structure and dynamics of a typical biological system are complex due to strong and inhomogeneous interactions between its constituents. The investigation of such systems with classical mathematical tools, such as differential equations…

The functioning of a living cell is largely determined by the structure of its regulatory network, comprising non-linear interactions between regulatory genes. An important factor for the stability and evolvability of such regulatory…

The biological processes that execute complex multiple functions, such as cell cycle, must ensure the order of sequential events and keep the dynamic robustness against various fluctuations. Here, we examine the dynamic mechanism and the…

Attractor neural network models of cortical decision-making circuits represent them as dynamical systems in the state space of neural firing rates with the attractors of the network encoding possible decisions. While the attractors of these…

Strength of attractor is studied by the return rate to itself after perturbations, for a multi-attractor state of a globally coupled map. It is found that fragile (Milnor) attractors have a large basin volume at the partially ordered phase.…

We develop a general method to explore how the function performed by a biological network can constrain both its structural and dynamical network properties. This approach is orthogonal to prior studies which examine the functional…

Boolean networks are a popular modeling framework in computational biology to capture the dynamics of molecular networks, such as gene regulatory networks. It has been observed that many published models of such networks are defined by…

Modular organization characterizes many complex networks occurring in nature, including the brain. In this paper we show that modular structure may be responsible for increasing the robustness of certain dynamical states of such systems. In…

We introduce a numerical method to study random Boolean networks with asynchronous stochas- tic update. Each node in the network of states starts with equal occupation probability and this probability distribution then evolves to a steady…

Biological processes, including cell differentiation, organism development, and disease progression, can be interpreted as attractors (fixed points or limit cycles) of an underlying networked dynamical system. In this paper, we study the…

The dynamics of the web map with weak linear dissipation is studied. The evolution of the coexisting attractors and the structure of their basins while changing the dissipation and nonlinearity are revealed. It is shown that the structure…

We study spatio-temporal pattern formation in a ring of N oscillators with inhibitory unidirectional pulselike interactions. The attractors of the dynamics are limit cycles where each oscillator fires once and only once. Since some of these…

The collective dynamics of a network of excitable nodes changes dramatically when inhibitory nodes are introduced. We consider inhibitory nodes which may be activated just like excitatory nodes but, upon activating, decrease the probability…