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Understanding cell function requires an accurate description of how noise is transmitted through biochemical networks. We present an analytical result for the power spectrum of the output signal of a biochemical network that takes into…

Molecular Networks · Quantitative Biology 2009-11-11 Sorin Tanase-Nicola , Patrick B. Warren , Pieter Rein ten Wolde

We study by simulation the effect of the diffusive motion of repressor molecules on the noise in mRNA and protein levels in the case of a repressed gene. We find that spatial fluctuations due to diffusion can drastically enhance the noise…

Molecular Networks · Quantitative Biology 2007-05-23 Jeroen S. van Zon , Marco J. Morelli , Sorin Tanase-Nicola , Pieter Rein ten Wolde

Neuronal activity arises from an interaction between ongoing firing generated spontaneously by neural circuits and responses driven by external stimuli. Using mean-field analysis, we ask how a neural network that intrinsically generates…

Neurons and Cognition · Quantitative Biology 2010-08-04 Kanaka Rajan , L F Abbott , Haim Sompolinsky

Large networks of sparsely coupled, excitatory and inhibitory cells occur throughout the brain. A striking feature of these networks is that they are chaotic. How does this chaos manifest in the neural code? Specifically, how variable are…

Neurons and Cognition · Quantitative Biology 2014-02-25 Guillaume Lajoie , Jean-Philippe Thivierge , Eric Shea-Brown

We present a new stochastic model, based on a 0-dimensional version of the well known biogeochemical flux model (BFM), which allows to take into account the temperature random fluctuations present in natural systems and therefore to…

Statistical Mechanics · Physics 2021-12-20 Paolo Lazzari , Roberto Grimaudo , Cosimo Solidoro , Davide Valenti

Light scattering from resonantly or nearly resonantly excited systems, known as resonance fluorescence, has been gaining importance as a versatile tool for investigating quantum states of matter and readout of quantum information, recently…

Quantum Physics · Physics 2023-10-02 Rafał A. Bogaczewicz , Paweł Machnikowski

Synchronization problems in complex networks are very often studied by researchers due to its many applications to various fields such as neurobiology, e-commerce and completion of tasks. In particular, Scale Free networks with degree…

Physics and Society · Physics 2015-07-07 Débora Torres , Matías A. Di Muro , Cristian E. La Rocca , Lidia A. Braunstein

In a genetic algorithm, fluctuations of the entropy of a genome over time are interpreted as fluctuations of the information that the genome's organism is storing about its environment, being this reflected in more complex organisms. The…

Computational Engineering, Finance, and Science · Computer Science 2010-11-04 Manuel Cebrian , Manuel Alfonseca , Alfonso Ortega

We explore the chaotic dynamics and complexity of a neuro-system with respect to variable synaptic weights in both noise free and noisy conditions. The chaotic dynamics of the system is investigated by bifurcation analysis and 0-1 test. A…

Chaotic Dynamics · Physics 2021-03-17 Sanjay K. Palit , Sayan Mukherjee

Synchronization is a widespread phenomenon observed in physical, biological, and social networks, which persists even under the influence of strong noise. Previous research on oscillators subject to common noise has shown that noise can…

Adaptation and Self-Organizing Systems · Physics 2021-06-02 Zachary G. Nicolaou , Michael Sebek , Istvan Z. Kiss , Adilson E. Motter

Fluctuations in intracellular reactions (intrinsic noise) reduce the information transmitted from an extracellular input to a cellular response. However, recent studies have demonstrated that the decrease in the transmitted information with…

Molecular Networks · Quantitative Biology 2019-10-09 Takehiro Tottori , Masashi Fujii , Shinya Kuroda

We study the fluctuations of the interface, in the steady state, of the Surface Relaxation Model (SRM) in two scale free interacting networks where a fraction $q$ of nodes in both networks interact one to one through external connections.…

Physics and Society · Physics 2016-04-06 M. F. Torres , M. A. Di Muro , C. E. La Rocca , L. A. Braunstein

We propose a principle of consistency between different hierarchical levels of biological systems. Given a consistency between molecule replication and cell reproduction, universal statistical laws on cellular chemical abundances are…

Cell Behavior · Quantitative Biology 2008-07-21 Kunihiko Kaneko , Chikara Furusawa

We perform a comprehensive study of noise-induced effects in a stochastic model of reaction-diffusion type, describing nano-structured thin films growth at condensation. We introduce an external flux of adsorbate between neighbour…

Mesoscale and Nanoscale Physics · Physics 2021-01-20 V. O. Kharchenko , A. V. Dvornichenko , D. O. Kharchenko

When can complex ecological interactions drive an entire ecosystem into a persistent non-equilibrium state, where species abundances keep fluctuating without going to extinction? We show that high-diversity spatially-extended systems, in…

Populations and Evolution · Quantitative Biology 2019-08-27 Felix Roy , Matthieu Barbier , Giulio Biroli , Guy Bunin

A general approach to consider spatially extended stochastic systems with correlations between additive and multiplicative noises subject to nonlinear damping is developed. Within modified cumulant expansion method, we derive an effective…

Statistical Mechanics · Physics 2009-11-10 A. I. Olemskoi , D. O. Kharchenko , I. A. Knyaz'

Neurons and networks in the cerebral cortex must operate reliably despite multiple sources of noise. To evaluate the impact of both input and output noise, we determine the robustness of single-neuron stimulus selective responses, as well…

Neurons and Cognition · Quantitative Biology 2018-01-24 Ran Rubin , L. F. Abbott , Haim Sompolinsky

Biological systems are modular, and this modularity evolves over time and in different environments. A number of observations have been made of increased modularity in biological systems under increased environmental pressure. We here…

Populations and Evolution · Quantitative Biology 2015-01-07 Jeong-Man Park , Liang Ren Niestemski , Michael W. Deem

Biological networks of interacting agents exhibit similar topological properties for a wide range of scales, from cellular to ecological levels, suggesting the existence of a common evolutionary origin. A general evolutionary mechanism…

Disordered Systems and Neural Networks · Physics 2010-10-25 Juan I. Perotti , Orlando V. Billoni , Francisco A. Tamarit , Sergio A. Cannas

Exerting fluctuations is a part of our daily life: traffic noise, heartbeat, opinion poll, currency exchange rate, electrical current, chemical reactions - they all permanently fluctuate. One of the most important questions is why the…

Physics and Society · Physics 2016-09-08 Maria K. Koleva