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The applicability of computational and dynamical systems models to organisms is scrutinized, using examples from developmental biology and cognition. Developmental morphogenesis is dependent on the inherent material properties of developing…

Neurons and Cognition · Quantitative Biology 2023-10-24 Stuart A. Newman

It has long been believed that the brain is highly modular both in terms of structure and function, although recent evidence has led some to question the extent of both types of modularity. We used artificial neural networks to test the…

Neurons and Cognition · Quantitative Biology 2024-10-15 Gabriel Béna , Dan F. M. Goodman

Humans and animals have a rich and flexible understanding of the physical world, which enables them to infer the underlying dynamical trajectories of objects and events, plausible future states, and use that to plan and anticipate the…

Artificial Intelligence · Computer Science 2023-10-26 Aran Nayebi , Rishi Rajalingham , Mehrdad Jazayeri , Guangyu Robert Yang

The cerebral cortex spontaneously displays different patterns of activity that evolve over time according to the brain state. Sleep, wakefulness, resting states, and attention are examples of a wide spectrum of physiological states that can…

Neural population activity exhibits complex, nonlinear dynamics, varying in time, over trials, and across experimental conditions. Here, we develop Conditionally Linear Dynamical System (CLDS) models as a general-purpose method to…

Neurons and Cognition · Quantitative Biology 2025-10-31 Victor Geadah , Amin Nejatbakhsh , David Lipshutz , Jonathan W. Pillow , Alex H. Williams

The Hopfield model provides a mathematically idealized yet insightful framework for understanding the mechanisms of memory storage and retrieval in the human brain. This model has inspired four decades of extensive research on learning and…

Neurons and Cognition · Quantitative Biology 2025-05-14 Simone Betteti , Giacomo Baggio , Francesco Bullo , Sandro Zampieri

Noise plays a fundamental role in a wide variety of physical and biological dynamical systems. It can arise from an external forcing or due to random dynamics internal to the system. It is well established that even weak noise can result in…

Analysis of PDEs · Mathematics 2019-08-06 Eric Forgoston , Richard O. Moore

In many body systems, constituents interact with each other, forming a recursive pattern of mutual interaction and giving rise to many interesting phenomena. Based upon concepts of the modern many body theory, a model for a generic many…

Soft Condensed Matter · Physics 2007-05-23 Zhen Ye

Although individual neurons and neural populations exhibit the phenomenon of representational drift, perceptual and behavioral outputs of many neural circuits can remain stable across time scales over which representational drift is…

Understanding procedural language requires anticipating the causal effects of actions, even when they are not explicitly stated. In this work, we introduce Neural Process Networks to understand procedural text through (neural) simulation of…

Computation and Language · Computer Science 2018-05-17 Antoine Bosselut , Omer Levy , Ari Holtzman , Corin Ennis , Dieter Fox , Yejin Choi

Stability of recurrent models is closely linked with trainability, generalizability and in some applications, safety. Methods that train stable recurrent neural networks, however, do so at a significant cost to expressibility. We propose an…

Machine Learning · Computer Science 2019-12-24 Max Revay , Ian R. Manchester

Predicting how the brain can be driven to specific states by means of internal or external control requires a fundamental understanding of the relationship between neural connectivity and activity. Network control theory is a powerful tool…

Neurons and Cognition · Quantitative Biology 2019-08-12 Teresa M. Karrer , Jason Z. Kim , Jennifer Stiso , Ari E. Kahn , Fabio Pasqualetti , Ute Habel , Danielle S. Bassett

The recent interest in human dynamics has led researchers to investigate the stochastic processes that explain human behaviour in different contexts. Here we propose a generative model to capture the essential dynamics of survival analysis,…

Physics and Society · Physics 2015-06-18 Trevor Fenner , Mark Levene , George Loizou

Metastable brain dynamics are characterized by abrupt, jump-like modulations so that the neural activity in single trials appears to unfold as a sequence of discrete, quasi-stationary states. Evidence that cortical neural activity unfolds…

Neurons and Cognition · Quantitative Biology 2019-06-20 Giancarlo La Camera , Alfredo Fontanini , Luca Mazzucato

We consider initial value problems of nonlinear dynamical systems, which include physical parameters. A quantity of interest depending on the solution is observed. A discretisation yields the trajectories of the quantity of interest in many…

Machine Learning · Computer Science 2021-01-13 Roland Pulch , Maha Youssef

A dynamic model for failures in biological organisms is proposed and studied both analytically and numerically. Each cell in the organism becomes dead under sufficiently strong stress, and is then allowed to be healed with some probability.…

Cell Behavior · Quantitative Biology 2009-11-11 J. Choi , M. Y. Choi , B. -G. Yoon

From critical infrastructure, to physiology and the human brain, complex systems rarely occur in isolation. Instead, the functioning of nodes in one system often promotes or suppresses the functioning of nodes in another. Despite advances…

Statistical Mechanics · Physics 2019-02-20 Michael M. Danziger , Ivan Bonamassa , Stefano Boccaletti , Shlomo Havlin

Time-discrete dynamical systems on a finite state space have been used with great success to model natural and engineered systems such as biological networks, social networks, and engineered control systems. They have the advantage of being…

Combinatorics · Mathematics 2015-03-17 Alan Veliz-Cuba , Reinhard Laubenbacher

We study a model for continuous-opinion dynamics under bounded confidence. In particular, we analyze the importance of the initial distribution of opinions in determining the asymptotic configuration. Thus, we sketch the structure of…

Physics and Society · Physics 2016-02-23 Adrian Carro , Raul Toral , Maxi San Miguel

Real-world networks in technology, engineering and biology often exhibit dynamics that cannot be adequately reproduced using network models given by smooth dynamical systems and a fixed network topology. Asynchronous networks give a…

Dynamical Systems · Mathematics 2017-02-07 Christian Bick , Michael Field