Related papers: Adaptive response and enlargement of dynamic range
Feedback in cellular processes is typically inferred through cellular responses to experimental perturbations. Modular response analysis provides a theoretical framework for translating specific perturbations into feedback sensitivities…
The activities and interactions of proteins that govern the cellular response to a signal generate a multitude of protein phosphorylation states and heterogeneous protein complexes. Here, using a computational model that accounts for 307…
Most models of neurons incorporate a capacitor to account for the marked capacitive behavior exhibited by the cell membrane. However, such capacitance is widely considered constant, thereby neglecting the possible effects of time-dependent…
Response delay is an inherent and essential part of human actions. In the context of human balance control, the response delay is traditionally modeled using the formalism of delay-differential equations, which adopts the approximation of…
Wide-area dynamic studies are of paramount importance to ensure the stability and reliability of power grids. The rising deployment synchrophasor and other sensing technologies has made data-driven modeling and analysis possible using the…
Active systems across scales, ranging from molecular machines to human crowds, are usually modeled as assemblies of self-propelled particles driven by internally generated forces. However, these models often assume memoryless dynamics and…
Elucidating the architecture and dynamics of large scale genetic regulatory networks of cells is an important goal in systems biology. We study the system level dynamical properties of the genetic network of Escherichia coli that regulates…
The Reward Prediction Error hypothesis proposes that phasic activity in the midbrain dopaminergic system reflects prediction errors needed for learning in reinforcement learning. Besides the well-documented association between dopamine and…
Most existing works on physical-layer (PHY) cooperation (beyond routing) focus on how to best use a given, static relay network--while wireless networks are anything but static. In this paper, we pose a different set of questions: given…
Many cellular and subcellular biological processes can be described in terms of diffusing and chemically reacting species (e.g. enzymes). Such reaction-diffusion processes can be mathematically modelled using either deterministic…
Organisms are equipped with regulatory systems that display a variety of dynamical behaviours ranging from simple stable steady states, to switching and multistability, to oscillations. Earlier work has shown that oscillations in protein…
In this letter, we derive the impulse response of the channel with a spherical absorbing receiver, a spherical reflecting boundary, and a point transmitter in molecular communication domain. By exploring the channel characteristics and…
While reinforcement learning has achieved remarkable successes in several domains, its real-world application is limited due to many methods failing to generalise to unfamiliar conditions. In this work, we consider the problem of…
This paper studies synchronization in coupled nonlinear dynamic networks with unknown parameters. Adaptation can be added to one or several elements in the network, while preserving the global synchronization conditions derived in…
Regulatory interactions between genes show a large amount of cross-species variability, even when the underlying functions are conserved: There are many ways to achieve the same function. Here we investigate the ability of regulatory…
Any organism is embedded in an environment that changes over time. The timescale for and statistics of environmental change, the precision with which the organism can detect its environment, and the costs and benefits of particular protein…
Many biological, physical, and social interactions have a particular dependence on where they take place. In living cells, protein movement between the nucleus and cytoplasm affects cellular response (i.e., proteins must be present in the…
We investigate dynamics of a kinetic model of inhibitory autoregulation as exemplified when a protein inhibits its own production by interfering with its messenger RNA, known in molecular biology as translational autoregulation. We first…
Protein language models (PLMs) learn contextual representations from protein sequences and are profoundly impacting various scientific disciplines spanning protein design, drug discovery, and structural predictions. One particular research…
We present a so-called adaptive Ising model (AIM) to provide a unifying explanation for sensitivity and perfect adaptation in bacterial chemotactic signalling, based on coupling among receptor dimers. In an AIM, an external field,…