Related papers: A Case Study on the Parametric Occurrence of Multi…
To model biological systems using networks, it is desirable to allow more than two levels of expression for the nodes and to allow the introduction of parameters. Various modeling and simulation methods addressing these needs using Boolean…
We establish that mass conserving single terminal-linkage networks of chemical reactions admit positive steady states regardless of network deficiency and the choice of reaction rate constants. This result holds for closed systems without…
We examine a chain of periodic arrays of 4 quantum spins with magnitudes of 1/2, 1, 3/2 and 1. There are four kinds of nearest-neighbour exchange parameters among them. We choose two independent parameters for concreteness: one represents…
Solving problems related to open quantum systems has attracted many interests. Here, we propose a variational quantum algorithm to find the steady state of open quantum systems. In this algorithm, we employ parameterized quantum circuits to…
We present a comprehensive study of the transient dynamics of multimode Schr\"odinger cat states in dissipatively coupled resonator arrays using the positive-P phase-space method. By employing the positive-P representation, we derive the…
Physically motivated stochastic dynamics are often used to sample from high-dimensional distributions. However such dynamics often get stuck in specific regions of their state space and mix very slowly to the desired stationary state. This…
Open many-body quantum systems play an important role in quantum optics and condensed-matter physics, and capture phenomena like transport, interplay between Hamiltonian and incoherent dynamics, and topological order generated by…
Microbial communities routinely have several alternative stable states observed for the same environmental parameters. Sudden and irreversible transitions between these states make external manipulation of these systems more complicated. To…
We study nematic configurations within three-dimensional (3D) cuboids, with planar degenerate boundary conditions on the cuboid faces, in the Landau-de Gennes framework. There are two geometry-dependent variables: the edge length of the…
Multivariate Poisson random variables subject to linear integer constraints arise in several application areas, such as queuing and biomolecular networks. This note shows how to compute conditional statistics in this context, by employing…
We propose and investigate general kinetic models %of Boltzmann type with transition probabilities that can describe the simultaneous change of multiple microscopic states of the interacting agents. These models can be applied to many…
Posttranslational modification of proteins is key in transmission of signals in cells. Many signaling pathways contain several layers of modification cycles that mediate and change the signal through the pathway. Here, we study a simple…
Understanding and predicting how complex systems respond to external perturbations is a central challenge in nonequilibrium statistical physics. Here we consider continuous-time Markov networks, which we subject to perturbations along a…
A mathematical model for a two-gene regulatory network is derived and several of their properties analyzed. Due to the presence of mixed continuous/discrete dynamics and hysteresis, we employ a hybrid systems model to capture the dynamics…
In this paper we introduce a method for resolving multi-parameter likelihoods by fixing all parameter values, but two. Evaluation of those two variables is followed by iteratively cycling through each of the parameters in turn until…
In this paper, we propose a general mathematical framework to represent many multi-agent signalling systems in recent works. Our goal is to apply previous results in monotonicity to this class of systems and study their asymptotic behavior.…
In this paper, we investigate the dynamics of quantum linear systems where the input signals are multi-channel multi-photon states, namely states determined by a definite number of photons superposed in multiple input channels. In contrast…
A multi-dimensional switched system or multi-mode multi-dimensional ($M^3D$) system extends the classic switched system by allowing different subsystem dimensions. The stability problem of the $M^3D$ system, whose state transitions at…
Simultaneous estimation of multiple parameters in quantum metrological models is complicated by factors relating to the (i) existence of a single probe state allowing for optimal sensitivity for all parameters of interest, (ii) existence of…
An important invariant of a chemical reaction network is its maximum number of positive steady states. This number, however, is in general difficult to compute. Nonetheless, there is an upper bound on this number -- namely, a network's…