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Interactions in natural communities can be highly heterogeneous, with any given species interacting appreciably with only some of the others, a situation commonly represented by sparse interaction networks. We study the consequences of…

Populations and Evolution · Quantitative Biology 2022-10-12 Stav Marcus , Ari M. Turner , Guy Bunin

Precise control of signal propagation in modular neural networks represents a fundamental challenge in computational neuroscience. We establish a framework for identifying optimal control nodes that maximize stimulus transmission between…

Neurons and Cognition · Quantitative Biology 2025-08-18 Bulat Batuev , Arsenii Onuchin , Sergey Sukhov

In neuronal systems, inhibition contributes to stabilizing dynamics and regulating pattern formation. Through developing mean field theories of neuronal models, using complete graph networks, inhibition is commonly viewed as one ``control…

Disordered Systems and Neural Networks · Physics 2024-04-29 Gustavo Menesse , Osame Kinouchi

Biological systems (among others) may respond to a large variety of distinct external stimuli, or signals. These perturbations will generally be presented to the system not singly, but in various combinations, so that a proper understanding…

Quantitative Methods · Quantitative Biology 2011-06-24 Dennis Wylie

Feedback in cellular processes is typically inferred through cellular responses to experimental perturbations. Modular response analysis provides a theoretical framework for translating specific perturbations into feedback sensitivities…

Molecular Networks · Quantitative Biology 2025-05-09 Seshu Iyengar , Andreas Hilfinger

In this paper, we tested several sparse optimization algorithms based on the public dataset of the DREAM5 Gene Regulatory Network Inference Challenge. And we find that introducing 20% of the regulatory network as a priori known data can…

Molecular Networks · Quantitative Biology 2022-11-15 Jiashu Lou , Leyi Cui , Wenxuan Qiu

In this paper, we study the behavior of systems of individuals in confined environments that are driven by laws of self-organization. We propose that, under certain conditions, the long-term behavior of such systems will be global…

Classical Analysis and ODEs · Mathematics 2020-05-14 Veronica Kalicki

The critical brain hypothesis posits that neural circuitry operates near criticality to reap the computational benefits of accessing a wide range of timescales. The theory of critical phenomena generally predicts heavy-tailed (power-law)…

Neurons and Cognition · Quantitative Biology 2025-12-23 Jacob T. Crosser , Braden A. W. Brinkman

This paper proposes a novel sparse principal component analysis algorithm with self-learning ability for successive modes, where synaptic intelligence is employed to measure the importance of variables and a regularization term is added to…

Machine Learning · Computer Science 2021-08-10 Jingxin Zhang , Donghua Zhou , Maoyin Chen

Classical flocking models demonstrate how local interactions generate emergent order, but real-world multi-agent deployments are bound by severe constraints: limited actuator availability, heterogeneous communication latencies, and…

Optimization and Control · Mathematics 2026-05-04 Jiguang Yu

We show that it is possible to learn protocols that effect fast and efficient state-to-state transformations in simulation models of active particles. By encoding the protocol in the form of a neural network we use evolutionary methods to…

Statistical Mechanics · Physics 2024-03-29 Corneel Casert , Stephen Whitelam

Simultaneous recordings from multiple neural units allow us to investigate the activity of very large neural ensembles. To understand how large ensembles of neurons process sensory information, it is necessary to develop suitable…

Neurons and Cognition · Quantitative Biology 2013-05-30 Fernando Montani , Elena Phoka , Mariela Portesi , Simon R. Schultz

Advances in neural recording methods enable sampling from populations of thousands of neurons during the performance of behavioral tasks, raising the question of how recorded activity relates to the theoretical models of computations…

Neurons and Cognition · Quantitative Biology 2020-07-01 Audrey J. Sederberg , Ilya Nemenman

Neuroevolution is a promising area of research that combines evolutionary algorithms with neural networks. A popular subclass of neuroevolutionary methods, called evolution strategies, relies on dense noise perturbations to mutate networks,…

Neural and Evolutionary Computing · Computer Science 2023-02-14 Tim Whitaker , Darrell Whitley

Developing autonomous agents that can interact with changing environments is an open challenge in machine learning. Robustness is particularly important in these settings as agents are often fit offline on expert demonstrations but deployed…

Machine Learning · Computer Science 2023-12-01 Neehal Tumma , Mathias Lechner , Noel Loo , Ramin Hasani , Daniela Rus

In many systems we can describe emergent macroscopic behaviors, quantitatively, using models that are much simpler than the underlying microscopic interactions; we understand the success of this simplification through the renormalization…

Biological Physics · Physics 2019-01-01 Leenoy Meshulam , Jeffrey L. Gauthier , Carlos D. Brody , David W. Tank , William Bialek

We propose a formal mathematical model for sparse representations and active dendrites in neocortex. Our model is inspired by recent experimental findings on active dendritic processing and NMDA spikes in pyramidal neurons. These…

Neurons and Cognition · Quantitative Biology 2016-05-16 Subutai Ahmad , Jeff Hawkins

This work presents a novel means for understanding learning dynamics and scaling relations in neural networks. We show that certain measures on the spectrum of the empirical neural tangent kernel, specifically entropy and trace, yield…

Machine Learning · Computer Science 2024-10-11 Samuel Tovey , Sven Krippendorf , Michael Spannowsky , Konstantin Nikolaou , Christian Holm

Improvements in the performance of deep neural networks have often come through the design of larger and more complex networks. As a result, fast memory is a significant limiting factor in our ability to improve network performance. One…

Machine Learning · Computer Science 2019-12-25 Simon Alford , Ryan Robinett , Lauren Milechin , Jeremy Kepner

The performance of trained neural networks is robust to harsh levels of pruning. Coupled with the ever-growing size of deep learning models, this observation has motivated extensive research on learning sparse models. In this work, we focus…

Machine Learning · Computer Science 2022-11-29 Jose Gallego-Posada , Juan Ramirez , Akram Erraqabi , Yoshua Bengio , Simon Lacoste-Julien