相关论文: Bistability preserving model reduction in apoptosi…
We revisit quantum dynamics of the damped and driven nonlinear oscillator. In the classical case this system has two stationary solutions (the limit cycles) in the certain parameter region, which is the origin of the celebrated bistability…
When a biological system robustly corrects component-level errors, the direct pressure on component performance declines. Components may become less reliable, maintain more genetic variability, or drift neutrally in design, creating the…
A two-dimensional bistable lattice is a periodic triangular network of non-linear bi-stable rods. The energy of each rod is piecewise quadratic and has two minima. Consequently, a rod undergoes a reversible phase transition when its…
Complex dynamical systems are prevalent in various domains, but their analysis and prediction are hindered by their high dimensionality and nonlinearity. Dimensionality reduction techniques can simplify the system dynamics by reducing the…
We consider a class of models describing an ensemble of identical interacting agents subject to multiplicative noise. In the thermodynamic limit, these systems exhibit continuous and discontinuous phase transitions in a, generally,…
Direct numerical simulation of dynamical systems is of fundamental importance in studying a wide range of complex physical phenomena. However, the ever-increasing need for accuracy leads to extremely large-scale dynamical systems whose…
Unlike many physical nonequilibrium systems, in biological systems, the coupling to external energy sources is not a fixed parameter but adaptively controlled by the system itself. We do not have theoretical frameworks that allow for such…
Regime shifts in biology, ecology, and other complex systems are often interpreted through stability landscapes and early warning signals that implicitly assume dynamics without memory effects. Yet many real systems exhibit these effects,…
In this paper we return to the problem of reduced-state dynamics in the presence of an interacting environment. The question we investigate is how to appropriately model a particular system evolution given some knowledge of the…
It is generally recognized that a distinguishing feature of life is its peculiar capability to avoid equilibration. The origin of this capability and its evolution along the timeline of abiogenesis is not yet understood. We propose to study…
Natural systems are remarkably robust and resilient, maintaining essential functions despite variability, uncertainty, and hostile conditions. Understanding these nonlinear, dynamic behaviours is challenging because such systems involve…
The vast majority of the literature on learning dynamical systems or stochastic processes from time series has focused on stable or ergodic systems, for both Bayesian and frequentist inference procedures. However, most real-world systems…
We present a method to quantify a system's resilience capacity, i.e., the set of degradation magnitudes for which all functional requirements remain satisfied. These requirements come from human stakeholders (e.g., operators, planners) who…
Bistability of MAP kinase (MAPK) activity has been suggested to contribute to several cellular processes, including differentiation and long-term synaptic potentiation. A recent model (48) predicts bistability due to interactions of the…
Biological systems perform an astonishing array of dynamical processes -- including development and repair, regulation, behavior and motor control, sensing and signaling, and adaptation, among others. Powered by the transduction of stored…
Post-translational modification (PTM) of proteins plays a key role in signal transduction, and hence significant effort has gone toward understanding how PTM networks process information. This involves, on the theory side, analyzing the…
Dynamical control of excitable biological systems is often complicated by the difficult and unreliable task of pre-control identification of unstable periodic orbits (UPOs). Here we show that, for both chaotic and nonchaotic systems, UPOs…
Computer simulations have become an important tool across the biomedical sciences and beyond. For many important problems several different models or hypotheses exist and choosing which one best describes reality or observed data is not…
Dynamical systems are used to model a variety of phenomena in which the bifurcation structure is a fundamental characteristic. Here we propose a statistical machine-learning approach to derive lowdimensional models that automatically…
Dimension reduction is a common strategy to study non-linear dynamical systems composed by a large number of variables. The goal is to find a smaller version of the system whose time evolution is easier to predict while preserving some of…