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Gene expression is a biochemical process, where stochastic binding and un-binding events naturally generate fluctuations and cell-to-cell variability in gene dynamics. These fluctuations typically have destructive consequences for proper…

Populations and Evolution · Quantitative Biology 2022-03-22 Yen Ting Lin , Nicolas E. Buchler

Cells sense their surrounding by employing intracellular signaling pathways that transmit hormonal signals from the cell membrane to the nucleus. TGF-$\beta$/SMAD signaling encodes various cell fates, controls tissue homeostasis and is…

Molecular Networks · Quantitative Biology 2022-10-12 Niklas Kolbe , Lorenz Hexemer , Lukas-Malte Bammert , Alexander Loewer , Mária Lukáčová-Medviďová , Stefan Legewie

We present a study investigating the role of mitochondrial variability in generating noise in eukaryotic cells. Noise in cellular physiology plays an important role in many fundamental cellular processes, including transcription,…

Cell Behavior · Quantitative Biology 2015-05-28 Iain G. Johnston , Bernadett Gaal , Ricardo Pires das Neves , Tariq Enver , Francisco J. Iborra , Nick S. Jones

From cytoskeletal networks to tissues, many biological systems behave as active materials. Their composition and stress-generation is affected by chemical reaction networks. In such systems, the coupling between mechanics and chemistry…

Biological Physics · Physics 2024-09-25 Luca Barberi , Karsten Kruse

Noise through its interaction with the nonlinearity of the living systems can give rise to counter-intuitive phenomena. In this paper we shortly review noise induced effects in different ecosystems, in which two populations compete for the…

Populations and Evolution · Quantitative Biology 2016-09-26 D. Valenti , A. Giuffrida , G. Denaro , N. Pizzolato , L. Curcio , B. Spagnolo , S. Mazzola , G. Basilone , A. Bonanno

We present simple classical dynamical models to address the question of introducing a stochastic nature in a time variable. These models include noise in the time variable but not in the "space" variable, which is opposite to the normal…

Other Condensed Matter · Physics 2007-05-23 Toru Ohira

Spatial heterogeneity is a hallmark of living systems, even at the molecular scale in individual cells. A key example is the partitioning of membrane-bound proteins via lipid domain formation or cytoskeleton-induced corralling. Yet the…

Molecular Networks · Quantitative Biology 2013-11-19 Andrew Mugler , Filipe Tostevin , Pieter Rein ten Wolde

We study the effect of time-delayed feedback control and Gaussian white noise on the spatio-temporal charge dynamics in a semiconductor superlattice. The system is prepared in a regime where the deterministic dynamics is close to a global…

Chaotic Dynamics · Physics 2009-11-13 Johanne Hizanidis , Eckehard Schoell

We have studied the entropy-driven mechanism leading to stationary patterns formation in stochastic systems with local dynamics and non-Fickian diffusion. We have shown that a multiplicative noise fulfilling a fluctuation-dissipation…

Statistical Mechanics · Physics 2008-06-20 D. O. Kharchenko , S. V. Kokhan , A. V. Dvornichenko

Stochasticity in gene expression can give rise to fluctuations in protein levels and lead to phenotypic variation across a population of genetically identical cells. Recent experiments indicate that bursting and feedback mechanisms play…

Molecular Networks · Quantitative Biology 2015-06-22 Niraj Kumar , Thierry Platini , Rahul V. Kulkarni

Single-cell studies often show significant phenotypic variability due to the stochastic nature of intra-cellular biochemical reactions. When the numbers of molecules, e.g., transcription factors and regulatory enzymes, are in low abundance,…

Quantitative Methods · Quantitative Biology 2015-06-17 Kyung Hyuk Kim , Hong Qian , Herbert M. Sauro

We investigated the effect of time delays on phase configurations in a set of two-dimensional coupled phase oscillators. Each oscillator is allowed to interact with its neighbors located within a finite radius, which serves as a control…

Pattern Formation and Solitons · Physics 2009-11-07 Seong-Ok Jeong , Tae-Wook Ko , Hie-Tae Moon

We report on self-induced switchings between multiple distinct space--time patterns in the dynamics of a spatially extended excitable system. These switchings between low-amplitude oscillations, nonlinear waves, and extreme events strongly…

Chaotic Dynamics · Physics 2016-03-21 Gerrit Ansmann , Klaus Lehnertz , Ulrike Feudel

We investigate the lifetime of dynamical regimes under the impact of noise motivated by low-dimensional models of the atmosphere. One may expect that the inclusion of noise tends to make the system leave prescribed regions of the state…

Numerical Analysis · Mathematics 2026-05-01 Henry Schoeller , Robin Chemnitz , Péter Koltai , Maximilian Engel , Stephan Pfahl

Experiments that discuss influence of noise to H. Seidel and H. Herzel dynamics model of human cardiovascular system are presented. Noise is introduced by considering stochastic delays in response to the sympathetic system. It appears that…

Tissues and Organs · Quantitative Biology 2007-05-23 Aleksandra Dudkowska , Danuta Makowiec

We introduce an analytical approach that allows predictions and mechanistic insights into the dynamics of nonlinear oscillator networks with heterogeneous time delays. We demonstrate that time delays shape the spectrum of a matrix…

Spatially extended dynamical systems, namely coupled map lattices, driven by additive spatio-temporal noise are shown to exhibit stochastic synchronization. In analogy with low-dymensional systems, synchronization can be achieved only if…

Chaotic Dynamics · Physics 2009-10-31 Lucia Baroni , Roberto Livi , Alessandro Torcini

The phenomenon of delay-induced resonance implies that in a nonlinear system a time-delay term may be used as an effective enhancer of the oscillations caused by an external forcing maintaining the same frequency. This is possible for the…

Chaotic Dynamics · Physics 2020-04-22 Julia Cantisán , Mattia Coccolo , Jesús M. Seoane , Miguel A. F. Sanjuán

Compartment models with delay terms are widely used across a range of disciplines. The motivation to include delay terms varies across different contexts. In epidemiological and pharmacokinetic models, the delays are often used to represent…

Dynamical Systems · Mathematics 2024-06-26 Christopher N. Angstmann , Anna V. McGann , Zhuang Xu

It has been generally recognized that stochasticity can play an important role in the information processing accomplished by reaction networks in biological cells. Most treatments of that stochasticity employ Gaussian noise even though it…

Molecular Networks · Quantitative Biology 2015-05-30 Neda Bostani , David A. Kessler , Nadav M. Shnerb , Wouter-Jan Rappel , Herbert Levine