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This work seeks to tackle the inherent complexity of dataspaces by introducing a novel data structure that can represent datasets across multiple levels of abstraction, ranging from local to global. We propose the concept of a multilevel…

Data Structures and Algorithms · Computer Science 2025-04-01 Marco Caputo , Michele Russo , Emanuela Merelli

Recently, neural network architectures have been developed to accommodate when the data has the structure of a graph or, more generally, a hypergraph. While useful, graph structures can be potentially limiting. Hypergraph structures in…

Algebraic Topology · Mathematics 2020-12-14 Eric Bunch , Qian You , Glenn Fung , Vikas Singh

Many types of data from fields including natural language processing, computer vision, and bioinformatics, are well represented by discrete, compositional structures such as trees, sequences, or matchings. Latent structure models are a…

Machine Learning · Computer Science 2026-02-04 Vlad Niculae , Caio F. Corro , Nikita Nangia , Tsvetomila Mihaylova , André F. T. Martins

Topological data analysis can extract effective information from higher-dimensional data. Its mathematical basis is persistent homology. The persistent homology can calculate topological features at different spatiotemporal scales of the…

Algebraic Topology · Mathematics 2023-09-29 Dinghua Shi , Zhifeng Chen , Chuang Ma , Guanrong Chen

Artificial Neural Networks(ANN) has been phenomenally successful on various pattern recognition tasks. However, the design of neural networks rely heavily on the experience and intuitions of individual developers. In this article, the…

Machine Learning · Statistics 2017-01-19 Zhao Peng

Understanding the decision-making processes of large language models is critical given their widespread applications. To achieve this, we aim to connect a formal mathematical framework - zigzag persistence from topological data analysis -…

Computation and Language · Computer Science 2025-06-16 Yuri Gardinazzi , Karthik Viswanathan , Giada Panerai , Alessio Ansuini , Alberto Cazzaniga , Matteo Biagetti

Complex systems are difficult to study not only because they are nonlinear, multiscale, and often nonstationary, but because their scientifically relevant organization is often invisible at the level of individual components, pairwise…

Physics and Society · Physics 2026-03-30 Mark M. Bailey

Computational topology provides a tool, persistent homology, to extract quantitative descriptors from structured objects (images, graphs, point clouds, etc). These descriptors can then be involved in optimization problems, typically as a…

Computational Geometry · Computer Science 2026-03-27 Mathieu Carriere , Yuichi Ike , Théo Lacombe , Naoki Nishikawa

This paper introduces a model that identifies spatial relationships for a structural analysis based on the concept of simplicial complex. The spatial relationships are identified through overlapping two map layers, namely a primary layer…

Data Analysis, Statistics and Probability · Physics 2008-01-15 Bin Jiang , Itzhak Omer

Spatial awareness in mammals is based on internalized representations of the environment---cognitive maps---encoded by networks of spiking neurons. Although behavioral studies suggest that these maps can remain stable for long periods, it…

Neurons and Cognition · Quantitative Biology 2019-09-18 Yuri Dabaghian

This paper aims to discuss a method of quantifying the 'shape' of data, via a methodology called topological data analysis. The main tool within topological data analysis is persistent homology; this is a means of measuring the shape of…

Algebraic Topology · Mathematics 2022-09-14 Tristan Gowdridge , Nikolaos Devilis , Keith Worden

Despite their impressive performance, contemporary neural networks often lack structural safeguards that promote stable learning and interpretable behavior. In this work, we introduce a reformulation of layer-level transformations that…

Machine Learning · Computer Science 2025-08-04 Saleh Nikooroo , Thomas Engel

With the rapid development of geometric deep learning techniques, many mesh-based convolutional operators have been proposed to bridge irregular mesh structures and popular backbone networks. In this paper, we show that while convolutions…

Computer Vision and Pattern Recognition · Computer Science 2023-12-29 Qiujie Dong , Xiaoran Gong , Rui Xu , Zixiong Wang , Shuangmin Chen , Shiqing Xin , Changhe Tu , Wenping Wang

We seek to understand how the representations of individual tokens and the structure of the learned feature space evolve between layers in deep neural networks under different learning objectives. We focus on the Transformers for our…

Computation and Language · Computer Science 2019-09-05 Elena Voita , Rico Sennrich , Ivan Titov

Transformer-based language models exhibit complex and distributed behavior, yet their internal computations remain poorly understood. Existing mechanistic interpretability methods typically treat attention heads and multilayer perceptron…

Machine Learning · Computer Science 2025-11-26 Areeb Ahmad , Abhinav Joshi , Ashutosh Modi

While large language models (LLMs) are trained purely on textual data, prior work has shown that their internal representations can exhibit rich geometric structure in embedding space. Building on this line of work, we investigate whether…

Artificial Intelligence · Computer Science 2026-05-28 Simardeep Singh , Paras Chopra

We study the evolution of latent space in fine-tuned NLP models. Different from the commonly used probing-framework, we opt for an unsupervised method to analyze representations. More specifically, we discover latent concepts in the…

Computation and Language · Computer Science 2022-10-25 Nadir Durrani , Hassan Sajjad , Fahim Dalvi , Firoj Alam

We use topological data analysis (TDA) to study how data transforms as it passes through successive layers of a deep neural network (DNN). We compute the persistent homology of the activation data for each layer of the network and summarize…

Machine Learning · Computer Science 2022-05-09 Matthew Wheeler , Jose Bouza , Peter Bubenik

Persistence modules are a central algebraic object arising in topological data analysis. The notion of interleaving provides a natural way to measure distances between persistence modules. We consider various classes of persistence modules,…

Algebraic Topology · Mathematics 2019-12-12 Peter Bubenik , Tane Vergili

As function approximators, deep neural networks have served as an effective tool to represent various signal types. Recent approaches utilize multi-layer perceptrons (MLPs) to learn a nonlinear mapping from a coordinate to its corresponding…

Machine Learning · Computer Science 2025-06-12 Woojin Cho , Minju Jo , Kookjin Lee , Noseong Park