Topological Deep Learning: Going Beyond Graph Data
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Abstract (arXiv)
Topological deep learning is a rapidly growing field that pertains to the development of deep learning models for data supported on topological domains such as simplicial complexes, cell complexes, and hypergraphs, which generalize many domains encountered in scientific computations. In this paper, we present a unifying deep learning framework built upon a richer data structure that includes widely adopted topological domains. Specifically, we first introduce combinatorial complexes, a novel type of topological domain. Combinatorial complexes can be seen as generalizations of graphs that maintain certain desirable properties. Similar to hypergraphs, combinatorial complexes impose no constraints on the set of relations. In addition, combinatorial complexes permit the construction of hierarchical higher-order relations, analogous to those found in simplicial and cell complexes. Thus, combinatorial complexes generalize and combine useful traits of both hypergraphs and cell complexes, which have emerged as two promising abstractions that facilitate the generalization of graph neural networks to topological spaces. Second, building upon combinatorial complexes and their rich combinatorial and algebraic structure, we develop a general class of message-passing combinatorial complex neural networks (CCNNs), focusing primarily on attention-based CCNNs. We characterize permutation and orientation equivariances of CCNNs, and discuss pooling and unpooling operations within CCNNs in detail. Third, we evaluate the performance of CCNNs on tasks related to mesh shape analysis and graph learning. Our experiments demonstrate that CCNNs have competitive performance as compared to state-of-the-art deep learning models specifically tailored to the same tasks. Our findings demonstrate the advantages of incorporating higher-order relations into deep learning models in different applications.
Key facts. Cited by 97 papers in the map (data through 14 Oct 2026). First posted on arXiv 1 Jun 2022.
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Citing papers per year: 2022: 1; 2023: 14; 2024: 28; 2025: 21; 2026: 33.
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- 2024Position: Topological Deep Learning is the New Frontier for Relational Learningcited by 66
- 2023Architectures of Topological Deep Learning: A Survey of Message-Passing Topological Neural Networkscited by 43
- 2023Generalized Simplicial Attention Neural Networkscited by 27
- 2024TopoBench: A Framework for Benchmarking Topological Deep Learningcited by 24
- 2024TopoX: A Suite of Python Packages for Machine Learning on Topological Domainscited by 22
- 2024E(n) Equivariant Topological Neural Networkscited by 22
- 2025Algebra Unveils Deep Learning -- An Invitation to Neuroalgebraic Geometrycited by 21
- 2024Beyond Euclid: An Illustrated Guide to Modern Machine Learning with Geometric, Topological, and Algebraic Structurescited by 20
- 2023From Latent Graph to Latent Topology Inference: Differentiable Cell Complex Modulecited by 19
- 2023Differentiable Euler Characteristic Transforms for Shape Classificationcited by 18
- 2024TopoTune : A Framework for Generalized Combinatorial Complex Neural Networkscited by 18
- 2025Position: Beyond Euclidean -- Foundation Models Should Embrace Non-Euclidean Geometriescited by 18
38 more
- 2023Metric Space Magnitude and Generalisation in Neural Networkscited by 15
- 2023Combinatorial Complexes: Bridging the Gap Between Cell Complexes and Hypergraphscited by 15
- 2023CIN++: Enhancing Topological Message Passingcited by 14
- 2024MANTRA: The Manifold Triangulations Assemblagecited by 12
- 2025Copresheaf Topological Neural Networks: A Generalized Deep Learning Frameworkcited by 12
- 2024Attending to Topological Spaces: The Cellular Transformercited by 11
- 2024Heterogeneous Sheaf Neural Networkscited by 10
- 2024On the Ability of Deep Networks to Learn Symmetries from Data: A Neural Kernel Theorycited by 10
- 2025HOG-Diff: Higher-Order Guided Diffusion for Graph Generationcited by 8
- 2023ICML 2023 Topological Deep Learning Challenge : Design and Resultscited by 7
- 2022A Topological Deep Learning Framework for Neural Spike Decodingcited by 6
- 2023Hypergraph-MLP: Learning on Hypergraphs without Message Passingcited by 5
- 2024Higher-Order Topological Directionality and Directed Simplicial Neural Networkscited by 5
- 2024Integrating Physics and Topology in Neural Networks for Learning Rigid Body Dynamicscited by 5
- 2025HOPSE: Scalable Higher-Order Positional and Structural Encoder for Combinatorial Representationscited by 5
- 2024Nonlinear Sheaf Diffusion in Graph Neural Networkscited by 4
- 2024Demystifying Higher-Order Graph Neural Networkscited by 4
- 2025Manifold Topological Deep Learning for Biomedical Datacited by 4
- 2026Topological Neural Operatorscited by 4
- 2024ICML Topological Deep Learning Challenge 2024: Beyond the Graph Domaincited by 3
- 2024Topological Deep Learning with State-Space Models: A Mamba Approach for Simplicial Complexescited by 3
- 2025CosmoBench: A Multiscale, Multiview, Multitask Cosmology Benchmark for Geometric Deep Learningcited by 3
- 2026Topology-Preserving Neural Operator Learning via Hodge Decompositioncited by 3
- 2026Kan Extension Transformers: A Categorical Unification of Attention, Diffusion, and Predict-Detach Self-Conditioningcited by 3
- 2024When Witnesses Defend: A Witness Graph Topological Layer for Adversarial Graph Learningcited by 2
- 2024Molecular topological deep learning for polymer property predictioncited by 2
- 2025Continuous Simplicial Neural Networkscited by 2
- 2025Ordered Topological Deep Learning: a Network Modeling Case Studycited by 2
- 2025Topotein: Topological Deep Learning for Protein Representation Learningcited by 2
- 2026The Logical Expressiveness of Topological Neural Networkscited by 2
- 2023Addressing caveats of neural persistence with deep graph persistencecited by 1
- 2024Inference of Sequential Patterns for Neural Message Passing in Temporal Graphscited by 1
- 2024Higher-Order Message Passing for Glycan Representation Learningcited by 1
- 2024Spatiotemporal Graph Learning with Direct Volumetric Information Passing and Feature Enhancementcited by 1
- 2024Dirac-Equation Signal Processing: Physics Boosts Topological Machine Learningcited by 1
- 2025CellCLAT: Preserving Topology and Trimming Redundancy in Self-Supervised Cellular Contrastive Learningcited by 1
- 2025Heat Kernel Goes Topologicalcited by 1
- 2025On the Sheafification of Higher-Order Message Passingcited by 1
50 most cited of 97 All 97 (JSON)
- 2026Batch Before You Lift: Scalable Topological Deep Learning on Large Graphs8 Oct 2026
- 2026Higher-Order Morphology Priors for Quadruped Reinforcement Learning Under Actuator Degradation7 Oct 2026
- 2026Mathematical Invariant-Enabled Topological Neural Networks for Molecular and Materials Property Prediction6 Oct 2026
- 2026Higher-Order Molecular Grammars for Generative and Foundation Models in Chemistry1 Oct 2026
- 2026Higher-Order Positional Encodings for Graph Representation Learning1 Oct 2026
- 2026TopoEmbedX: A General Framework for Representation Learning on Topological Domains29 Sep 2026
- 2026Dynamic Kuramoto-Hodge Operators for PDEs on Complex Geometries and Topologies27 Sep 2026
- 2026Combinatorial Network-Based Manifold Topological Deep Learning for Image Analysis21 Sep 2026
- 2026Topological Signal Processing With Unoriented Operators21 Sep 2026
- 2026From Euclidean to Graph-Structured Data: A Survey of Collaborative Learning2 Sep 2026
- 2026Look Before You Lift: Visual and Quantitative Diagnostics for Topological Deep Learning15 Aug 2026
- 2026Differentiable Lifting for Topological Neural Networks2 Aug 2026
38 more
- 2026Foundations of Equivariant Deep Learning: Unifying Graph and Sheaf Neural Networks4 Jul 2026
- 2026Collapsed Effective Operators for Higher-order Structures22 Jun 2026
- 2026Learning the Geometry of Data: A Mathematical Review of Shape Space Analysis15 Jun 2026
- 2026Equivariant Cellular Sheaves for Molecular Electronic Structure: Bridging Sheaf Cohomology and E(3)-Equivariant Hamiltonian Learning14 Jun 2026
- 2026Relational Structural Causal Models12 Jun 2026
- 2026Topological Neural Operators8 Jun 2026
- 2026Kan Extension Transformers: A Categorical Unification of Attention, Diffusion, and Predict-Detach Self-Conditioning26 May 2026
- 2026Periodic Topological Deep Learning for Polymer Design and Discovery26 May 2026
- 2026The Cognitive Categorical Transformer: Category-Theoretic Inductive Biases for Language Modeling22 May 2026
- 2026Riemannian geometry meets fMRI: the advantages of modeling correlation manifolds and eigenvector subspaces21 May 2026
- 2026Topological Signal Processing: An Application-Oriented Tutorial18 May 2026
- 2026Hypergraph Pattern Machine: Compositional Tokenization for Higher-Order Interactions15 May 2026
- 2026Neural Point-Forms15 May 2026
- 2026Topology-Preserving Neural Operator Learning via Hodge Decomposition13 May 2026
- 2026The WidthWall: A Strict Expressivity Hierarchy for Hypergraph Neural Networks13 May 2026
- 2026TopoU-Net: a U-Net architecture for topological domains11 May 2026
- 2026Topological Neural Tangent Kernel1 May 2026
- 2026Weisfeiler Lehman Test on Combinatorial Complexes: Generalized Expressive Power of Topological Neural Networks1 May 2026
- 2026The Logical Expressiveness of Topological Neural Networks21 Apr 2026
- 2026TopoOR: A Unified Topological Scene Representation for the Operating Room10 Mar 2026
- 2026CCMamba: Topologically-Informed Selective State-Space Networks on Combinatorial Complexes for Higher-Order Graph Learning28 Jan 2026
- 2025The Human Brain as a Combinatorial Complex22 Nov 2025
- 2025CuMPerLay: Learning Cubical Multiparameter Persistence Vectorizations14 Oct 2025
- 2025Bayesian Topological Convolutional Neural Nets13 Oct 2025
- 2025On the Sheafification of Higher-Order Message Passing27 Sep 2025
- 2025Topotein: Topological Deep Learning for Protein Representation Learning4 Sep 2025
- 2025A Remedy for Over-Squashing in Graph Learning via Forman-Ricci Curvature based Graph-to-Hypergraph Structural Lifting15 Aug 2025
- 2025Heat Kernel Goes Topological16 Jul 2025
- 2025CosmoBench: A Multiscale, Multiview, Multitask Cosmology Benchmark for Geometric Deep Learning4 Jul 2025
- 2025Higher-Order Graph Databases24 Jun 2025
- 2025CellCLAT: Preserving Topology and Trimming Redundancy in Self-Supervised Cellular Contrastive Learning27 May 2025
- 2025Copresheaf Topological Neural Networks: A Generalized Deep Learning Framework27 May 2025
- 2025Directed Semi-Simplicial Learning with Applications to Brain Activity Decoding23 May 2025
- 2025HOPSE: Scalable Higher-Order Positional and Structural Encoder for Combinatorial Representations21 May 2025
- 2025Quotient Complex Transformer (QCformer) for Perovskite Data Analysis14 May 2025
- 2025Position: Beyond Euclidean -- Foundation Models Should Embrace Non-Euclidean Geometries11 Apr 2025
- 2025Ordered Topological Deep Learning: a Network Modeling Case Study20 Mar 2025
- 2025Continuous Simplicial Neural Networks17 Mar 2025
50 newest of 97 All 97 (JSON)
- 2024Position: Topological Deep Learning is the New Frontier for Relational Learningcited by 66
- 2023Architectures of Topological Deep Learning: A Survey of Message-Passing Topological Neural Networkscited by 43
- 2023Generalized Simplicial Attention Neural Networkscited by 27
- 2024TopoBench: A Framework for Benchmarking Topological Deep Learningcited by 24
- 2024TopoX: A Suite of Python Packages for Machine Learning on Topological Domainscited by 22
- 2024E(n) Equivariant Topological Neural Networkscited by 22
- 2025Algebra Unveils Deep Learning -- An Invitation to Neuroalgebraic Geometrycited by 21
- 2024Beyond Euclid: An Illustrated Guide to Modern Machine Learning with Geometric, Topological, and Algebraic Structurescited by 20
- 2023From Latent Graph to Latent Topology Inference: Differentiable Cell Complex Modulecited by 19
- 2023Differentiable Euler Characteristic Transforms for Shape Classificationcited by 18
- 2024TopoTune : A Framework for Generalized Combinatorial Complex Neural Networkscited by 18
- 2025Position: Beyond Euclidean -- Foundation Models Should Embrace Non-Euclidean Geometriescited by 18
12 most cited of 93 All 93 (JSON)
- 2026Batch Before You Lift: Scalable Topological Deep Learning on Large Graphs8 Oct 2026
- 2026Mathematical Invariant-Enabled Topological Neural Networks for Molecular and Materials Property Prediction6 Oct 2026
- 2026Higher-Order Molecular Grammars for Generative and Foundation Models in Chemistry1 Oct 2026
- 2026Higher-Order Positional Encodings for Graph Representation Learning1 Oct 2026
- 2026TopoEmbedX: A General Framework for Representation Learning on Topological Domains29 Sep 2026
- 2026Dynamic Kuramoto-Hodge Operators for PDEs on Complex Geometries and Topologies27 Sep 2026
- 2026Combinatorial Network-Based Manifold Topological Deep Learning for Image Analysis21 Sep 2026
- 2026Topological Signal Processing With Unoriented Operators21 Sep 2026
- 2026From Euclidean to Graph-Structured Data: A Survey of Collaborative Learning2 Sep 2026
- 2026Look Before You Lift: Visual and Quantitative Diagnostics for Topological Deep Learning15 Aug 2026
- 2026Differentiable Lifting for Topological Neural Networks2 Aug 2026
- 2026Foundations of Equivariant Deep Learning: Unifying Graph and Sheaf Neural Networks4 Jul 2026
12 newest of 93 All 93 (JSON)