Pipeline learns topological features for protein stability prediction.
problem Predicting protein stability using topological features.
method Data-driven method to learn topological features, comparing with expert features.
result Topological features achieve 92%-99% of SME-based models' performance.
Paper proposes learnable topological features for efficient phylogenetic inference.
problem Finding appropriate topological structures for phylogenetic inference tasks requires significant design effort and domain expertise.
method Combines raw node features with graph neural networks to automatically adapt to different tasks.
result Demonstrates effectiveness and efficiency on simulated and real data phylogenetic inference tasks.
A novel method extracts topological features from word embeddings for text classification.
problem High dimensional and noisy text representations in natural language processing.
method Persistent homology for topological data analysis on word embeddings.
result Topological features outperform conventional text mining features on long textual documents.
Study shows topological features improve time series classification.
problem Classifying stochastic processes with varying noise and sampling.
method Topological data analysis features compared to statistical and raw features.
result Topological features lead to better classification performance.
A novel method integrates feature and topology views for unsupervised graph representation learning.
problem Lack of mutual information across feature and topology views in graph representation learning.
method Proposes a multi-view representation learning module and a common representation learning module using mutual information maximization and reconstruction loss minimization.
result Demonstrates effectiveness in integrating feature and topology views, achieving comparable or better performance than supervised methods.
This paper is first-line research expanding GANs into graph topology analysis. By leveraging the hierarchical connectivity structure of a graph, we have demonstrated that generative adversarial networks (GANs) can successfully capture topological features of any arbitrary graph, and rank edge sets by different stages a…
IVFS simplifies feature selection for high-dimensional data preservation.
problem Maintaining structure and pairwise distances in high-dimensional data.
method IVFS framework based on persistent diagrams from computational topology.
result IVFS well preserves pairwise distances and topological patterns of full data.
Graph neural network using Beltrami flow for feature and topology evolution.
problem Efficient feature learning and topology evolution on graphs.
method Discretized Beltrami flow applied to graph neural networks with positional encodings.
result Achieves state-of-the-art results on various benchmarks.
Paper explores applying TDA to text classification, improving model performance.
problem Applying TDA to text classification is challenging due to the complexity of text geometry.
method Used word embeddings and TF-IDF vectors to extract topological features from text.
result Topological features improve classification results, especially in ensemble models.
Paper introduces a framework for diagnosing Alzheimer's disease using higher-order topological features from fMRI.
problem Diagnosing Alzheimer's disease using brain network topology.
method Persistent homology to extract higher-order features (cycles, cavities) from fMRI data.
result Framework significantly outperforms existing methods in AD classification.
We introduce the first unified theory for target tracking using Multiple Hypothesis Tracking, Topological Data Analysis, and machine learning. Our string of innovations are 1) robust topological features are used to encode behavioral information, 2) statistical models are fitted to distributions over these topological …
Topology-GS improves 3D GS for better structural and feature integrity.
problem Compromised pixel-level and feature-level integrity in 3D GS.
method Incorporates Local Persistent Voronoi Interpolation (LPVI) and PersLoss based on persistent homology.
result Topology-GS outperforms existing methods in PSNR, SSIM, and LPIPS metrics.
Study enhances neural network predictions for wave height using topological features.
problem Challenges in predicting wave heights due to short-term and long-term factors.
method Hybridization of persistent homology with neural networks for feature engineering.
result Significant improvements in R2 score and reductions in errors for various neural network models. ARTree uses deep learning to infer tree topologies efficiently.
problem Efficient phylogenetic inference from tree topologies.
method Deep autoregressive model based on graph neural networks (GNNs).
result ARTree provides a flexible family of distributions over tree topologies.
We develop a theory of higher-order feature attribution for complex models.
problem Interpreting feature contributions in models with interactions is challenging.
method We extend Integrated Gradients (IG) to higher-order feature attributions.
result We establish natural connections to statistics and topological signal processing.
Topology guidance controls generative model outputs by specifying topological features.
problem Lack of control in generative models for visual analysis.
method Coupling a coordinate-based neural network with a diffusion model to guide sampling.
result Generated fields adhere to specified topological features while staying within the generative distribution.
We present a way to use Topological Data Analysis (TDA) for machine learning tasks on grayscale images. We apply persistent homology to generate a wide range of topological features using a point cloud obtained from an image, its natural grayscale filtration, and different filtrations defined on the binarized image. We…
In this paper, we exploit minimal sensing information gathered from biologically inspired sensor networks to perform exploration and mapping in an unknown environment. A probabilistic motion model of mobile sensing nodes, inspired by motion characteristics of cockroaches, is utilized to extract weak encounter informati…
Machine learning and topological data analysis identify unique geometric and topological features of human papillae.
problem Identifying unique features of human papillae across individuals.
method 3D microscopic scans, machine learning, discrete differential geometry, computational topology, persistent homology.
result Persistent homology features of papillae shape predict papillae type with high accuracy and can identify individuals with high accuracy.
Graph embeddings have become a key and widely used technique within the field of graph mining, proving to be successful across a broad range of domains including social, citation, transportation and biological. Graph embedding techniques aim to automatically create a low-dimensional representation of a given graph, whi…
Paper uses topological data analysis for time series classification.
problem Classifying univariate time series data, especially physiological signals.
method Persistent homology for feature engineering, followed by machine learning.
result Higher accuracy achieved with fewer features compared to traditional methods.
Topology-enhanced loss improves 3D object reconstruction from 2D images.
problem Challenges in reconstructing 3D objects from 2D images, especially capturing shape information.
method Integrates multi-scale topological features into the reconstruction loss using cubical complexes and optimal transport distance.
result Topology-aware loss substantially improves 3D reconstruction quality.
STRAND: A single representation for hypothesis testing and vectorisation of persistence diagrams
problem Comparing persistence diagrams
method Survival topological representation analysis
result Non-parametric two-sample test with calibrated Type I error and high power
A new method for graph-structured data improves transformer performance by incorporating topology.
problem Improving transformer performance on graph-structured data.
method Parameterizing topological masks as a learnable function of a weighted adjacency matrix, approximated with graph random features.
result Efficient masking algorithms provide strong performance gains for tasks on image and point cloud data.
Reproduces IVFS for high-dimensional data structure preservation.
problem Preserving high-dimensional data structure in unsupervised feature selection.
method Inspired by random subset method, IVFS maintains data similarity through topological structure.
result IVFS outperforms SPEC and MCFS on most datasets.
We propose PLLay, a novel topological layer for general deep learning models based on persistence landscapes, in which we can efficiently exploit the underlying topological features of the input data structure. In this work, we show differentiability with respect to layer inputs, for a general persistent homology with …
Chatter detection has become a prominent subject of interest due to its effect on cutting tool life, surface finish and spindle of machine tool. Most of the existing methods in chatter detection literature are based on signal processing and signal decomposition. In this study, we use topological features of data simula…
TDL uses topological features for deep learning models, promising new insights and solutions.
problem Lack of comprehensive theoretical foundations and practical benefits in TDL.
method Discussing open problems and potential solutions in TDL.
result TDL can complement existing graph and geometric learning methods.
Persistent homology enhances graph classification by capturing long-range graph properties.
problem Lack of formal assessment of persistent homology in graph learning.
method Brief introduction and theoretical discussion of persistent homology in graph context, followed by empirical analysis.
result Persistent homology improves graph classification, especially for data with prominent topological structures.
The main approaches for node classification in graphs are information propagation and the association of the class of the node with external information. State of the art methods merge these approaches through Graph Convolutional Networks. We here use the association of topological features of the nodes with their clas…
The scale and complexity of modern data sets and the limitations associated with testing large numbers of hypotheses underline the need for feature selection methods. Spectral techniques rank features according to their degree of consistency with an underlying metric structure, but their current graph-based formulation…
A new method compares persistent cycles in topological data.
problem Comparing persistent homology representations of two spaces.
method Direct comparison of individual persistent cycles based on persistence intervals and spatial placement.
result Demonstrated the effectiveness of the method in topological inference.
The paper examines topological features of ReLU networks and their relation to decision boundaries and training loss.
problem Understanding the topological structure of ReLU neural network activation patterns.
method Polytope decomposition of feature space, Fiedler partition of dual graph, homology computation of cellular decomposition.
result The Fiedler partition of the dual graph correlates with decision boundaries in binary classification tasks, and similar patterns in training loss and polyhedral cell-count emerge in regression tasks.
Machine learning reveals hidden features in knot classification.
problem Classifying the topology of closed curves.
method Investigating shortcut methods used by ML for knot classification.
result Developed a dataset and code to remove non-topological features.
In recent years there has been noticeable interest in the study of the "shape of data". Among the many ways a "shape" could be defined, topology is the most general one, as it describes an object in terms of its connectivity structure: connected components (topological features of dimension 0), cycles (features of dime…
Persistent homology reveals a topological signature of grokking in neural networks.
problem Understanding how neural networks learn and generalize from modular arithmetic tasks.
method Persistent homology on point clouds derived from embedding matrices of models trained on modular arithmetic.
result A sharp increase in first homology persistence indicates grokking, with a dominant long-lived topological feature and structured secondary features.
Topological Data Analysis is a recent and fast growing field providing a set of new topological and geometric tools to infer relevant features for possibly complex data. This paper is a brief introduction, through a few selected topics, to basic fundamental and practical aspects of \tda\ for non experts.
In this paper, we extend the formal definition of topological surgery by introducing new notions in order to model natural phenomena exhibiting it. On the one hand, the common features of the presented natural processes are captured by our schematic models and, on the other hand, our new definitions provide the theoret…
In this study, we present and analyze a framework for geometric and topological estimation for mapping of unknown environments. We consider agents mimicking motion behaviors of cyborg insects, known as biobots, and exploit coordinate-free local interactions among them to infer geometric and topological information abou…
Method interprets deep learning models using topological data analysis.
problem Lack of interpretability in deep learning models, especially in high-risk applications.
method Topological and geometric data analysis to infer features and decision-making mechanisms of DL models.
result Extracted subgraphs reveal relevant features for model decisions, demonstrating model's reliance on pertinent data.
The paper presents a method for analyzing shape graphs using specific features.
problem Analyzing geometric and topological variations in shape graphs.
method Curated set of topological, geometric, and directional features for shape graph analysis.
result The feature representation is effective for tasks like group comparison and classification.
A fundamental problem in computer vision is boundary estimation, where the goal is to delineate the boundary of objects in an image. In this paper, we propose a method which jointly incorporates geometric and topological information within an image to simultaneously estimate boundaries for objects within images with mo…
This work bridges competitive learning with gradient-based learning for faster feature extraction.
problem Lack of powerful feature extractors in competitive learning methods.
method Introduces gradient-based competitive layers for feature extraction.
result Demonstrates theoretical equivalence and faster convergence of gradient-based competitive layers.
TDA improves FX clustering quality over traditional methods.
problem Capturing complex currency co-movements in FX markets.
method Topological Data Analysis (TDA) compared to traditional statistical methods on monthly FX returns.
result TDA-based clustering yields more compact and well-separated clusters.
Develops persistent Khovanov homology for tangles.
problem Lack of local topological features in evolutionary Khovanov homology for knots and links.
method Introduces a new mathematical framework using persistent Khovanov homology of tangles, employing functor and planar algebra.
result Provides a new method to characterize local features in curve-type data.
Research predicts XRP price anomalies using graph topologies.
problem Forecasting extreme price movements in XRP cryptoasset.
method Analyzed topological features of XRP transaction graphs.
result Topological features indicate extreme price surges.
New method reduces spatial graphs while preserving their topological features.
problem Finding a smaller spatial graph with the same structure.
method Topological spatial graph coarsening approach based on triangle-aware graph filtration.
result Significant reduction in graph size while preserving topological information.
Topological parallax assesses AI models' geometric similarity to datasets for safety.
problem Ensuring AI models' robustness and safety in deep learning applications.
method Topological parallax compares a trained model to a reference dataset using Rips complexes and geodesic distortions.
result Topological parallax indicates whether a model shares similar multiscale geometric features with the dataset.