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Encoding models are used for predicting brain activity in response to sensory stimuli with the objective of elucidating how sensory information is represented in the brain. Encoding models typically comprise a nonlinear transformation of…

Neurons and Cognition · Quantitative Biology 2017-03-13 Umut Güçlü , Marcel A. J. van Gerven

The study of dynamical systems defined on complex networks provides a natural framework with which to investigate myriad features of neural dynamics, and has been widely undertaken. Typically, however, networks employed in theoretical…

Neurons and Cognition · Quantitative Biology 2013-02-22 Reuben O'Dea , Jonathan J. Crofts , Marcus Kaiser

We propose a hierarchically modular, dynamical neural network model whose architecture minimizes a specifically designed energy function and defines its temporal characteristics. The model has an internal and an external space that are…

Neurons and Cognition · Quantitative Biology 2026-04-16 Kazuyoshi Tsutsumi , Ernst Niebur

Advances in experimental neuroscience have transformed our ability to explore the structure and function of neural circuits. At the same time, advances in machine learning have unleashed the remarkable computational power of artificial…

Neurons and Cognition · Quantitative Biology 2021-11-23 SueYeon Chung , L. F. Abbott

The continuous integration of experimental data into coherent models of the brain is an increasing challenge of modern neuroscience. Such models provide a bridge between structure and activity, and identify the mechanisms giving rise to…

Neurons and Cognition · Quantitative Biology 2017-03-03 Jannis Schuecker , Maximilian Schmidt , Sacha J. van Albada , Markus Diesmann , Moritz Helias

Many questions in neuroscience involve understanding of the responses of large populations of neurons. However, when dealing with large-scale neural activity, interpretation becomes difficult, and comparisons between two animals, or across…

Neurons and Cognition · Quantitative Biology 2022-05-18 Max Dabagia , Konrad P Kording , Eva L Dyer

High dimensional dynamics play a vital role in brain function, ecological systems, and neuro-inspired machine learning. Where and how these dynamics are confined in the phase space remains challenging to solve. Here, we provide an analytic…

Neurons and Cognition · Quantitative Biology 2024-10-28 Shishe Wang , Haiping Huang

Advances in simultaneous recordings of large numbers of neurons have driven significant interest in the structure of neural population activity such as dimension. A key question is how these dynamic features arise mechanistically and their…

Neurons and Cognition · Quantitative Biology 2025-08-08 Xuanyu Shen , Yu Hu

Neural models learn data representations that lie on low-dimensional manifolds, yet modeling the relation between these representational spaces is an ongoing challenge. By integrating spectral geometry principles into neural modeling, we…

Machine Learning · Computer Science 2025-07-15 Marco Fumero , Marco Pegoraro , Valentino Maiorca , Francesco Locatello , Emanuele Rodolà

Humans and animals can recognize latent structures in their environment and apply this information to efficiently navigate the world. However, it remains unclear what aspects of neural activity contribute to these computational…

Neurons and Cognition · Quantitative Biology 2024-04-12 Albert J. Wakhloo , Will Slatton , SueYeon Chung

Dynamical systems see widespread use in natural sciences like physics, biology, chemistry, as well as engineering disciplines such as circuit analysis, computational fluid dynamics, and control. For simple systems, the differential…

The task of modelling and forecasting a dynamical system is one of the oldest problems, and it remains challenging. Broadly, this task has two subtasks - extracting the full dynamical information from a partial observation; and then…

Dynamical Systems · Mathematics 2022-08-16 Tyrus Berry , Suddhasattwa Das

We propose an algorithmic framework, that employs active subspace techniques, for scalable global optimization of functions with low effective dimension (also referred to as low-rank functions). This proposal replaces the original…

Optimization and Control · Mathematics 2024-02-01 Coralia Cartis , Xinzhu Liang , Estelle Massart , Adilet Otemissov

Studies of the dynamics of nonlinear recurrent neural networks often assume independent and identically distributed couplings, but large-scale connectomics data indicate that biological neural circuits exhibit markedly different…

Neurons and Cognition · Quantitative Biology 2025-10-28 David G. Clark , Owen Marschall , Alexander van Meegen , Ashok Litwin-Kumar

Empirical complex systems can be characterized not only by pairwise interactions, but also by higher-order (group) interactions influencing collective phenomena, from metabolic reactions to epidemics. Nevertheless, higher-order networks'…

Physics and Society · Physics 2026-01-01 Maxime Lucas , Luca Gallo , Arsham Ghavasieh , Federico Battiston , Manlio De Domenico

Deep neural networks come in many sizes and architectures. The choice of architecture, in conjunction with the dataset and learning algorithm, is commonly understood to affect the learned neural representations. Yet, recent results have…

Machine Learning · Computer Science 2024-07-08 Loek van Rossem , Andrew M. Saxe

Neural models learn representations of high-dimensional data on low-dimensional manifolds. Multiple factors, including stochasticities in the training process, model architectures, and additional inductive biases, may induce different…

Machine Learning · Computer Science 2025-12-02 Hanlin Yu , Berfin Inal , Georgios Arvanitidis , Soren Hauberg , Francesco Locatello , Marco Fumero

A core challenge in the interpretation of deep neural networks is identifying commonalities between the underlying algorithms implemented by distinct networks trained for the same task. Motivated by this problem, we introduce DYNAMO, an…

Machine Learning · Computer Science 2023-03-01 Jordan Cotler , Kai Sheng Tai , Felipe Hernández , Blake Elias , David Sussillo

Deep neural networks are widely used in various domains. However, the nature of computations at each layer of the deep networks is far from being well understood. Increasing the interpretability of deep neural networks is thus important.…

Machine Learning · Computer Science 2018-12-19 Haiping Huang

Modern recording techniques enable neuroscientists to simultaneously study neural activity across large populations of neurons, with capturing predictor-dependent correlations being a fundamental challenge in neuroscience. Moreover, the…

Applications · Statistics 2025-02-04 Ganchao Wei