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In recent years, there has been considerable interest in developing machine learning models on graphs to account for topological inductive biases.
Algebraic Topology
Hatcher, A · 2001
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Kernels and Regularization on Graphs
Smola, A. J. and Kondor, R · 2003
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Gaussian Markov Random Fields: Theory and Applications
Rue, H. and Held, L · 2005
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Finite Element Exterior Calculus, Homological Techniques, and Applications
Arnold, D. N., Falk, R. S., and Winther, R · 2006
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Discrete Differential Forms for Computational Modeling
Desbrun, M., Kanso, E., and Tong, Y · 2006
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The Graph Neural Network Model
Scarselli, F., Gori, M., Tsoi, A. C., Hagenbuchner, M., and Monfardini, G · 2008
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Higher-Order Interactions Characterized in Cortical Activity
Yu, S., Yang, H., Nakahara, H., Santos, G., Nikolić, D., and Plenz, D · 2011
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Gungho! a New Dynamical Core for the Unified Model
Staniforth, A., Melvin, T., and Wood, N · 2013
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JAX: Composable Transformations of Python+NumPy Programs, 2018
Bradbury, J., Frostig, R., Hawkins, P., Johnson, M. J., Leary, C., Maclaurin, D., Necula, G., Paszke, A., VanderPlas, J., Wanderman-Milne, S., and Zhang, Q · 2018
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Systematic Analysis of Complex Genetic Interactions
Kuzmin, E., VanderSluis, B., Wang, W., Tan, G., Deshpande, R., Chen, Y., Usaj, M., Balint, A., Usaj, M. M., van Leeuwen, J., Koch, E., Pons, C., Dagilis, A., Pryszlak, M., Wang, J. Z. Y., Hanchard, J., Riggi, M., Xu, K., Heydari, H., Luis, B.-J. S., Shuteriqi, E., Zhu, H., Dyk, N. V., Sharifpoor, S., Costanzo, M., Loewith, R., Caudy, A., Bolnick, D., Brown, G., Andrews, B., Boone, C., and Myers, C · 2018
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Structured Neural Summarization
Fernandes, P., Allamanis, M., and Brockschmidt, M · 2019
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Topological Signal Processing over Simplicial Complexes
Barbarossa, S. and Sardellitti, S · 2020
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Matérn Gaussian Processes on Riemannian Manifolds
Borovitskiy, V., Terenin, A., Mostowsky, P., and Deisenroth, M · 2020
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Cell Complex Neural Networks
Hajij, M., Istvan, K., and Zamzmi, G · 2020
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Evolutionary Dynamics of Higher-Order Interactions in Social Networks
Alvarez-Rodriguez, U., Battiston, F., de Arruda, G. F., Moreno, Y., Perc, M., and Latora, V · 2021
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The Topological Dirac Equation of Networks and Simplicial Complexes
Bianconi, G · 2021
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Weisfeiler and Lehman Go Cellular: CW Networks
Bodnar, C., Frasca, F., Otter, N., Wang, Y. G., Liò, P., Montúfar, G., and Bronstein, M · 2021
Cited alongside, same era.
Adaptive Gaussian Processes on Graphs via Spectral Graph Wavelets
Opolka, F., Zhi, Y.-C., Liò, P., and Dong, X · 2022
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GPJax: a Gaussian Process Framework in JAX
Pinder, T. and Dodd, D · 2022
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Signal Processing on Cell Complexes
Roddenberry, T. M., Schaub, M. T., and Hajij, M · 2022
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Generalized Simplicial Attention Neural Networks
Battiloro, C., Testa, L., Giusti, L., Sardellitti, S., Lorenzo, P. D., and Barbarossa, S · 2023
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Dirac Signal Processing of Higher-Order Topological Signals
Calmon, L., Schaub, M. T., and Bianconi, G · 2023
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DiffDock: Diffusion Steps, Twists, and Turns for Molecular Docking
Corso, G., Stärk, H., Jing, B., Barzilay, R., and Jaakkola, T · 2023
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Matérn Gaussian Processes on Graphs
Borovitskiy, V., Azangulov, I., Terenin, A., Mostowsky, P., Deisenroth, M. P., and Durrande, N · 2021
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Vector-Valued Gaussian Processes on Riemannian Manifolds via Gauge Independent Projected Kernels
Hutchinson, M., Terenin, A., Borovitskiy, V., Takao, S., Teh, Y., and Deisenroth, M · 2021
Cited alongside, same era.
Gaussian Processes on Hypergraphs
Pinder, T., Turnbull, K., Nemeth, C., and Leslie, D · 2021
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PyCharge: an Open-source Python Package for Self-Consistent Electrodynamics Simulations of Lorentz Oscillators and Moving Point Charges
Filipovich, M. J. and Hughes, S · 2022
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Non-separable Spatio-temporal Graph Kernels via SPDEs
Nikitin, A., John, S., Solin, A., and Kaski, S · 2022
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Sea Level Anomaly and Geostrophic Currents, Multi-mission, Global, Optimal Interpolation, Gridded
NOAA CoastWatch · 2023
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Gaussian Processes on Graphs via Spectral Kernel Learning
Zhi, Y.-C., Ng, Y. C., and Dong, X · 2023
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Intrinsic Gaussian Vector Fields on Manifolds
Robert-Nicoud, D., Krause, A., and Borovitskiy, V · 2024
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Hodge-Compositional Edge Gaussian Processes
Yang, M., Borovitskiy, V., and Isufi, E · 2024
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