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We study the dynamics of gene activities in relatively small size biological networks (up to a few tens of nodes), e.g. the activities of cell-cycle proteins during the mitotic cell-cycle progression. Using the framework of deterministic…

Molecular Networks · Quantitative Biology 2009-11-13 Gautier Stoll , Jacques Rougemont , Felix Naef

We propose a probabilistic framework for developing computational models of biological neural systems. In this framework, physiological recordings are viewed as discrete-time partial observations of an underlying continuous-time stochastic…

Neurons and Cognition · Quantitative Biology 2026-02-10 Ahmed ElGazzar , Marcel van Gerven

Memory is a complex phenomenon that involves several distinct mechanisms. These mechanisms operate at different spatial and temporal levels. This chapter focuses on the theoretical framework and the mathematical models that have been…

Neurons and Cognition · Quantitative Biology 2021-12-22 Stefano Fusi

Discrete dynamic models are a powerful tool for the understanding and modeling of large biological networks. Although a lot of progress has been made in developing analysis tools for these models, there is still a need to find approaches…

Molecular Networks · Quantitative Biology 2013-06-14 Jorge G. T. Zañudo , Réka Albert

Learning shared structure across environments facilitates rapid learning and adaptive behavior in neural systems. This has been widely demonstrated and applied in machine learning to train models that are capable of generalizing to novel…

Machine Learning · Statistics 2025-04-09 Ayesha Vermani , Josue Nassar , Hyungju Jeon , Matthew Dowling , Il Memming Park

The inclusion of a macroscopic adaptive threshold is studied for the retrieval dynamics of both layered feedforward and fully connected neural network models with synaptic noise. These two types of architectures require a different method…

Disordered Systems and Neural Networks · Physics 2007-08-03 D. Bolle , R. Heylen

Recurrent neural networks (RNNs) are well suited for solving sequence tasks in resource-constrained systems due to their expressivity and low computational requirements. However, there is still a need to bridge the gap between what RNNs are…

Machine Learning · Computer Science 2023-03-13 Anand Subramoney , Khaleelulla Khan Nazeer , Mark Schöne , Christian Mayr , David Kappel

We propose Sparse Neural Network architectures that are based on random or structured bipartite graph topologies. Sparse architectures provide compression of the models learned and speed-ups of computations, they can also surpass their…

Machine Learning · Computer Science 2017-06-20 Alfred Bourely , John Patrick Boueri , Krzysztof Choromonski

Recurrent networks of dynamic elements frequently exhibit emergent collective oscillations, which can display substantial regularity even when the individual elements are considerably noisy. How noise-induced dynamics at the local level…

Adaptation and Self-Organizing Systems · Physics 2017-01-04 Belen Sancristobal , Beatriz Rebollo , Pol Boada , Maria V. Sanchez-Vives , Jordi Garcia-Ojalvo

Despite their apparent simplicity, random Boolean networks display a rich variety of dynamical behaviors. Much work has been focused on the properties and abundance of attractors. We here derive an expression for the number of attractors in…

Molecular Networks · Quantitative Biology 2007-05-23 Björn Samuelsson , Carl Troein

One major challenge in neuroscience is the identification of interrelations between signals reflecting neural activity and how information processing occurs in the neural circuits. At the cellular and molecular level, mechanisms of signal…

Applications · Statistics 2019-09-27 Giacomo Aletti , Davide Lonardoni , Giovanni Naldi , Thierry Nieus

Understanding how the brain learns to compute functions reliably, efficiently and robustly with noisy spiking activity is a fundamental challenge in neuroscience. Most sensory and motor tasks can be described as dynamical systems and could…

Neurons and Cognition · Quantitative Biology 2017-05-24 Sophie Denève , Alireza Alemi , Ralph Bourdoukan

A central challenge in the computational modeling of neural dynamics is the trade-off between accuracy and simplicity. At the level of individual neurons, nonlinear dynamics are both experimentally established and essential for neuronal…

Despite substantial research into the biological basis of memory, the precise mechanisms by which experiences are encoded, stored, and retrieved in the brain remain incompletely understood. A growing body of evidence supports the engram…

Neural and Evolutionary Computing · Computer Science 2025-10-28 Daniel Szelogowski

In response to the continuously changing feedstock supply and market demand for products with different specifications, the processes need to be operated at time-varying operating conditions and targets (e.g., setpoints) to improve the…

Systems and Control · Electrical Eng. & Systems 2024-10-28 Lai Wei , Ryan McCloy , Jie Bao

Sparsity is a ubiquitous feature of many real world signals such as natural images and neural spiking activities. Conventional compressed sensing utilizes sparsity to recover low dimensional signal structures in high ambient dimensions…

Statistics Theory · Mathematics 2018-07-02 Abbas Kazemipour

The primate heteromodal cortex presents an evident functional modularity at a mesoscopic level, with physiological and anatomical evidence pointing to it as likely substrate of long-term memory. In order to investigate some of its…

Neurons and Cognition · Quantitative Biology 2021-12-09 Carlo Fulvi Mari

We study the effect of competition between short-term synaptic depression and facilitation on the dynamical properties of attractor neural networks, using Monte Carlo simulation and a mean field analysis. Depending on the balance between…

Neurons and Cognition · Quantitative Biology 2007-05-23 J. J. Torres , J. M. Cortes , J. Marro , H. J. Kappen

The \emph{Daydreaming} algorithm was proposed as a learning rule that simultaneously reinforces stored patterns and suppresses spurious attractors to improve the storage capacity of the Hopfield model. Its effectiveness has been reported…

Disordered Systems and Neural Networks · Physics 2026-04-22 Mikiya Doi , Masayuki Ohzeki , Federico Ricci-Tersenghi

While most models of randomly connected networks assume nodes with simple dynamics, nodes in realistic highly connected networks, such as neurons in the brain, exhibit intrinsic dynamics over multiple timescales. We analyze how the…

Disordered Systems and Neural Networks · Physics 2019-09-11 Samuel P. Muscinelli , Wulfram Gerstner , Tilo Schwalger