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Sequence memory is an essential attribute of natural and artificial intelligence that enables agents to encode, store, and retrieve complex sequences of stimuli and actions. Computational models of sequence memory have been proposed where…

Neural and Evolutionary Computing · Computer Science 2023-11-06 Hamza Tahir Chaudhry , Jacob A. Zavatone-Veth , Dmitry Krotov , Cengiz Pehlevan

We introduce a minimal model for the evolution of functional protein-interaction networks using a sequence-based mutational algorithm, and apply the model to study neutral drift in networks that yield oscillatory dynamics. Starting with a…

Molecular Networks · Quantitative Biology 2018-04-25 Md. Zulfikar Ali , Ned S. Wingreen , Ranjan Mukhopadhyay

This paper provides an overview of Lawvere's Fixed-Point Theorem in category theory and aims to detail the universal framework underlying self-reference and recursive structures. First, we rigorously define fundamental concepts - such as…

General Mathematics · Mathematics 2025-05-19 Joaquim Reizi Barreto

We introduce the delta-homology model of memory, a unified framework in which recall, learning, and prediction emerge from cycle closure, the completion of topologically constrained trajectories within the brain's latent manifold. A…

Machine Learning · Computer Science 2025-10-21 Xin Li

In many instances one has to deal with parametric models. Such models in vector spaces are connected to a linear map. The reproducing kernel Hilbert space and affine- / linear- representations in terms of tensor products are directly…

Numerical Analysis · Mathematics 2018-11-26 Hermann G. Matthies , Roger Ohayon

We introduce a new extragradient iterative process, motivated and inspired by [S. H. Khan, A Picard-Mann Hybrid Iterative Process, Fixed Point Theory and Applications, doi:10.1186/1687-1812-2013-69], for finding a common element of the set…

Functional Analysis · Mathematics 2014-03-14 Ibrahim Karahan , Murat Ozdemir

We revisit the fundamental notion of continuity in representation theory, with special attention to the study of quantum physics. After studying the main theorem in the context of representation theory, we draw attention to the significant…

Mathematical Physics · Physics 2021-08-03 J. M. Hoff da Silva , G. M. Caires da Rocha

To analyze the topological properties of the given discrete data, one needs to consider a continuous transform called filtration. Persistent homology serves as a tool to track changes of homology in the filtration. The outcome of the…

Optimization and Control · Mathematics 2024-10-08 Keunsu Kim , Jae-Hun Jung

We present a machine learning approach that leverages persistent homology to classify bacterial flagellar motors into two functional states: rotated and stalled. By embedding protein structural data into a topological framework, we extract…

Biomolecules · Quantitative Biology 2025-12-19 Zakaria Lamine , Abdelatif Hafid , Mohamed Rahouti

Although there is no doubt that multi-parameter persistent homology is a useful tool to analyse multi-variate data, efficient ways to compute these modules are still lacking in the available topological data analysis toolboxes. Other issues…

Algebraic Topology · Mathematics 2021-04-15 Asilata Bapat , Robyn Brooks , Celia Hacker , Claudia Landi , Barbara I. Mahler

It is argued that systems whose elements are renewed according to an extremal criterion can generally be expected to exhibit long-term memory. This is verified for the minimal extremally driven model, which is first defined and then solved…

Statistical Mechanics · Physics 2009-10-31 D. A. Head

A key question in Reinforcement Learning is which representation an agent can learn to efficiently reuse knowledge between different tasks. Recently the Successor Representation was shown to have empirical benefits for transferring…

Machine Learning · Computer Science 2018-07-06 Lucas Lehnert , Michael L. Littman

We consider the class of Hopfield models of associative memory with activation function $F$ and state space $\{-1,1\}^N$, where each vertex of the cube describes a configuration of $N$ binary neurons. $M$ randomly chosen configurations,…

Probability · Mathematics 2025-04-08 Véronique Gayrard

Recurrent neural networks (RNNs) have become increasingly popular in information processing tasks involving time series and temporal data. A fundamental property of RNNs is their ability to create reliable input/output responses, often…

Machine Learning · Statistics 2026-05-07 Juan-Pablo Ortega , Florian Rossmannek

Recurrent neural networks can learn complex transduction problems that require maintaining and actively exploiting a memory of their inputs. Such models traditionally consider memory and input-output functionalities indissolubly entangled.…

Machine Learning · Computer Science 2018-11-09 Davide Bacciu , Antonio Carta , Alessandro Sperduti

Topological Data Analysis (TDA) can be used to detect and characterize holes in an image, such as zero-dimensional holes (connected components) or one-dimensional holes (loops). However, there is currently no widely accepted statistical…

Methodology · Statistics 2025-08-26 Susan Glenn , Jessi Cisewski-Kehe , Jun Zhu , William M Bement

Persistence has proved to be a valuable tool to analyze real world data robustly. Several approaches to persistence have been attempted over time, some topological in flavor, based on the vector space-valued homology functor, other…

Algebraic Topology · Mathematics 2019-05-23 Mattia G. Bergomi , Pietro Vertechi

Residual connections have been proposed as an architecture-based inductive bias to mitigate the problem of exploding and vanishing gradients and increased task performance in both feed-forward and recurrent networks (RNNs) when trained with…

Machine Learning · Computer Science 2024-01-04 Igor Dubinin , Felix Effenberger

The spiking activity of principal cells in mammalian hippocampus encodes an internalized neuronal representation of the ambient space---a cognitive map. Once learned, such a map enables the animal to navigate a given environment for a long…

Neurons and Cognition · Quantitative Biology 2017-10-10 Andrey Babichev , Dmitriy Morozov , Yuri Dabaghian

Beginning with the projectively invariant method for linear programming, interior point methods have led to powerful algorithms for many difficult computing problems, in combinatorial optimization, logic, number theory and non-convex…

Numerical Analysis · Computer Science 2014-12-11 Narendra Karmarkar