[HTML][HTML] Topological data analysis in biomedicine: A review

Y Skaf, R Laubenbacher - Journal of Biomedical Informatics, 2022 - Elsevier
Significant technological advances made in recent years have shepherded a dramatic
increase in utilization of digital technologies for biomedicine–everything from the …

Scalar field comparison with topological descriptors: Properties and applications for scientific visualization

L Yan, TB Masood, R Sridharamurthy… - Computer Graphics …, 2021 - Wiley Online Library
In topological data analysis and visualization, topological descriptors such as persistence
diagrams, merge trees, contour trees, Reeb graphs, and Morse–Smale complexes play an …

Topological data analysis in cardiovascular signals: An overview

Topological data analysis (TDA) is a recent approach for analyzing and interpreting complex
data sets based on ideas a branch of mathematics called algebraic topology. TDA has …

TopoBERT: Exploring the topology of fine-tuned word representations

A Rathore, Y Zhou, V Srikumar… - Information …, 2023 - journals.sagepub.com
Transformer-based language models such as BERT and its variants have found widespread
use in natural language processing (NLP). A common way of using these models is to fine …

Experimental observations of the topology of convolutional neural network activations

E Purvine, D Brown, B Jefferson, C Joslyn… - Proceedings of the …, 2023 - ojs.aaai.org
Topological data analysis (TDA) is a branch of computational mathematics, bridging
algebraic topology and data science, that provides compact, noise-robust representations of …

TopoAct: Visually exploring the shape of activations in deep learning

A Rathore, N Chalapathi, S Palande… - Computer Graphics …, 2021 - Wiley Online Library
Deep neural networks such as GoogLeNet, ResNet, and BERT have achieved impressive
performance in tasks such as image and text classification. To understand how such …

Adaptive covers for mapper graphs using information criteria

N Chalapathi, Y Zhou, B Wang - 2021 IEEE International …, 2021 - ieeexplore.ieee.org
The mapper construction is a widely used tool from topological data analysis in obtaining
topological summaries of large, high-dimensional point cloud data. It has enjoyed great …

NeuMapper: A scalable computational framework for multiscale exploration of the brain's dynamical organization

C Geniesse, S Chowdhury, M Saggar - Network Neuroscience, 2022 - direct.mit.edu
For better translational outcomes, researchers and clinicians alike demand novel tools to
distill complex neuroimaging data into simple yet behaviorally relevant representations at …

-Mapper: Learning a Cover in the Mapper Construction

E Alvarado, R Belton, E Fischer, KJ Lee… - arXiv preprint arXiv …, 2023 - arxiv.org
The Mapper algorithm is a visualization technique in topological data analysis (TDA) that
outputs a graph reflecting the structure of a given dataset. The Mapper algorithm requires …

Visualizing and analyzing the topology of neuron activations in deep adversarial training

Y Zhou, Y Zhou, J Ding, B Wang - 2023 - openreview.net
Deep models are known to be vulnerable to data adversarial attacks, and many adversarial
training techniques have been developed to improve their adversarial robustness. While …