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Recent work has sought to understand the behavior of neural networks by comparing representations between layers and between different trained models. We examine methods for comparing neural network representations based on canonical…

Machine Learning · Computer Science 2019-07-22 Simon Kornblith , Mohammad Norouzi , Honglak Lee , Geoffrey Hinton

Quantifying similarity between neural representations -- e.g. hidden layer activation vectors -- is a perennial problem in deep learning and neuroscience research. Existing methods compare deterministic responses (e.g. artificial networks…

Machine Learning · Computer Science 2023-02-07 Lyndon R. Duong , Jingyang Zhou , Josue Nassar , Jules Berman , Jeroen Olieslagers , Alex H. Williams

How can we tell whether two neural networks utilize the same internal processes for a particular computation? This question is pertinent for multiple subfields of neuroscience and machine learning, including neuroAI, mechanistic…

Neurons and Cognition · Quantitative Biology 2023-10-31 Mitchell Ostrow , Adam Eisen , Leo Kozachkov , Ila Fiete

We explore the use of a topological manifold, represented as a collection of charts, as the target space of neural network based representation learning tasks. This is achieved by a simple adjustment to the output of an encoder's network…

Machine Learning · Computer Science 2021-06-15 Eric O. Korman

Representational similarity in neural networks is inherently scale-dependent, yet widely used metrics such as Centered Kernel Alignment (CKA) and Procrustes analysis provide only global scalar estimates. These scalars often fail to…

Machine Learning · Computer Science 2026-04-02 Tiago F. Tavares , Fabio Ayres , Paris Smaragdis

Sequence alignment supports numerous tasks in bioinformatics, natural language processing, pattern recognition, social sciences, and others fields. While the alignment of two sequences may be performed swiftly in many applications, the…

Data Structures and Algorithms · Computer Science 2021-12-06 Eloi Araujo , Luiz Rozante , Diego P. Rubert , Fabio V. Martinez

The extent to which different neural or artificial neural networks (models) rely on equivalent representations to support similar tasks remains a central question in neuroscience and machine learning. Prior work has typically compared…

Neurons and Cognition · Quantitative Biology 2026-04-06 Jialin Wu , Shreya Saha , Yiqing Bo , Meenakshi Khosla

Modern scientific fields face the challenge of integrating a wealth of data, analyses, and results. We recently showed that a neglect of this integration can lead to circular analyses and redundant explanations. Here, we help advance…

Neurons and Cognition · Quantitative Biology 2025-08-15 Mika Rubinov

A multitude of (dis)similarity measures between neural network representations have been proposed, resulting in a fragmented research landscape. Most of these measures fall into one of two categories. First, measures such as linear…

Machine Learning · Statistics 2023-11-21 Sarah E. Harvey , Brett W. Larsen , Alex H. Williams

Stationary subspace analysis (SSA) is a blind source separation framework that decomposes linearly mixed multivariate data into stationary and nonstationary components. We extend SSA to spatially indexed data by introducing spatial…

Methodology · Statistics 2026-05-20 Perttu Saarela , Klaus Nordhausen , Jaakko Pere , Anne M. Ruiz

Symmetric functions, which take as input an unordered, fixed-size set, are known to be universally representable by neural networks that enforce permutation invariance. These architectures only give guarantees for fixed input sizes, yet in…

Machine Learning · Computer Science 2022-10-11 Aaron Zweig , Joan Bruna

Artificial and biological agents cannon learn given completely random and unstructured data. The structure of data is encoded in the metric relationships between data points. In the context of neural networks, neuronal activity within a…

Machine Learning · Computer Science 2022-11-03 Kosio Beshkov , Jonas Verhellen , Mikkel Elle Lepperød

We propose a novel method of introducing structure into existing machine learning techniques by developing structure-based similarity and distance measures. To learn structural information, low-dimensional structure of the data is captured…

Machine Learning · Statistics 2011-10-27 Joseph Wang , Venkatesh Saligrama , David A. Castañón

In this paper, we propose a new neural architecture search (NAS) problem of Symmetric Positive Definite (SPD) manifold networks, aiming to automate the design of SPD neural architectures. To address this problem, we first introduce a…

Machine Learning · Computer Science 2021-06-15 Rhea Sanjay Sukthanker , Zhiwu Huang , Suryansh Kumar , Erik Goron Endsjo , Yan Wu , Luc Van Gool

Comparing different neural network representations and determining how representations evolve over time remain challenging open questions in our understanding of the function of neural networks. Comparing representations in neural networks…

Machine Learning · Statistics 2018-10-25 Ari S. Morcos , Maithra Raghu , Samy Bengio

Self-attention (SA) network has shown profound value in image captioning. In this paper, we improve SA from two aspects to promote the performance of image captioning. First, we propose Normalized Self-Attention (NSA), a reparameterization…

Computer Vision and Pattern Recognition · Computer Science 2020-03-20 Longteng Guo , Jing Liu , Xinxin Zhu , Peng Yao , Shichen Lu , Hanqing Lu

Representational similarity analysis (RSA) tests models of brain computation by investigating how neural activity patterns reflect experimental conditions. Instead of predicting activity patterns directly, the models predict the geometry of…

The extent to which different biological and artificial neural systems rely on equivalent internal representations to support similar tasks remains a central question in neuroscience and machine learning. Prior work typically compares…

Computer Vision and Pattern Recognition · Computer Science 2026-02-24 Jialin Wu , Shreya Saha , Yiqing Bo , Meenakshi Khosla

We explore and expand the $\textit{Soft Nearest Neighbor Loss}$ to measure the $\textit{entanglement}$ of class manifolds in representation space: i.e., how close pairs of points from the same class are relative to pairs of points from…

Machine Learning · Statistics 2019-02-07 Nicholas Frosst , Nicolas Papernot , Geoffrey Hinton

The alignment of biological networks has the potential to teach us as much about biology and disease as has sequence alignment. Sequence alignment can be optimally solved in polynomial time. In contrast, network alignment is $NP$-hard,…

Molecular Networks · Quantitative Biology 2016-07-12 Nil Mamano , Wayne Hayes