Alexander Tong

Publication Activity (10 Years)

Years Active: 2018-2024
Publications (10 Years): 54

Top Topics

Bayesian Inference

Computational Framework

Top Venues

Publications

Alessandro Palma, Till Richter, Hanyi Zhang, Manuel Lubetzki, Alexander Tong, Andrea Dittadi, Fabian J. Theis
Generating Multi-Modal and Multi-Attribute Single-Cell Counts with CFGen. CoRR (2024)
Danqi Liao, Chen Liu, Benjamin W. Christensen, Alexander Tong, Guillaume Huguet, Guy Wolf, Maximilian Nickel, Ian Adelstein, Smita Krishnaswamy
Assessing Neural Network Representations During Training Using Noise-Resilient Diffusion Spectral Entropy. CISS (2024)
Tara Akhound-Sadegh, Jarrid Rector-Brooks, Avishek Joey Bose, Sarthak Mittal, Pablo Lemos, Cheng-Hao Liu, Marcin Sendera, Siamak Ravanbakhsh, Gauthier Gidel, Yoshua Bengio, Nikolay Malkin, Alexander Tong
Iterated Denoising Energy Matching for Sampling from Boltzmann Densities. CoRR (2024)
Chen Liu, Ke Xu, Liangbo L. Shen, Guillaume Huguet, Zilong Wang, Alexander Tong, Danilo Bzdok, Jay Stewart, Jay C. Wang, Lucian V. Del Priore, Smita Krishnaswamy
ImageFlowNet: Forecasting Multiscale Trajectories of Disease Progression with Irregularly-Sampled Longitudinal Medical Images. CoRR (2024)
Alexander Tong, Nikolay Malkin, Kilian Fatras, Lazar Atanackovic, Yanlei Zhang, Guillaume Huguet, Guy Wolf, Yoshua Bengio
Simulation-Free Schrödinger Bridges via Score and Flow Matching. AISTATS (2024)
Kacper Kapusniak, Peter Potaptchik, Teodora Reu, Leo Zhang, Alexander Tong, Michael M. Bronstein, Avishek Joey Bose, Francesco Di Giovanni
Metric Flow Matching for Smooth Interpolations on the Data Manifold. CoRR (2024)
Alexander Tong, Frederik Wenkel, Dhananjay Bhaskar, Kincaid MacDonald, Jackson D. Grady, Michael Perlmutter, Smita Krishnaswamy, Guy Wolf
Learnable Filters for Geometric Scattering Modules. IEEE Trans. Signal Process. 72 (2024)
Avishek Joey Bose, Tara Akhound-Sadegh, Guillaume Huguet, Kilian Fatras, Jarrid Rector-Brooks, Cheng-Hao Liu, Andrei Cristian Nica, Maksym Korablyov, Michael M. Bronstein, Alexander Tong
SE(3)-Stochastic Flow Matching for Protein Backbone Generation. ICLR (2024)
Guillaume Huguet, James Vuckovic, Kilian Fatras, Eric Thibodeau-Laufer, Pablo Lemos, Riashat Islam, Cheng-Hao Liu, Jarrid Rector-Brooks, Tara Akhound-Sadegh, Michael M. Bronstein, Alexander Tong, Avishek Joey Bose
Sequence-Augmented SE(3)-Flow Matching For Conditional Protein Backbone Generation. CoRR (2024)
Alexander Tong, Kilian Fatras, Nikolay Malkin, Guillaume Huguet, Yanlei Zhang, Jarrid Rector-Brooks, Guy Wolf, Yoshua Bengio
Improving and generalizing flow-based generative models with minibatch optimal transport. Trans. Mach. Learn. Res. 2024 (2024)
Guillaume Huguet, Alexander Tong, Edward De Brouwer, Yanlei Zhang, Guy Wolf, Ian Adelstein, Smita Krishnaswamy
A Heat Diffusion Perspective on Geodesic Preserving Dimensionality Reduction. CoRR (2023)
Trang Nguyen, Alexander Tong, Kanika Madan, Yoshua Bengio, Dianbo Liu
Causal Inference in Gene Regulatory Networks with GFlowNet: Towards Scalability in Large Systems. CoRR (2023)
Michael Perlmutter, Alexander Tong, Feng Gao, Guy Wolf, Matthew J. Hirn
Understanding Graph Neural Networks with Generalized Geometric Scattering Transforms. SIAM J. Math. Data Sci. 5 (4) (2023)
Alexander Tong, Nikolay Malkin, Kilian Fatras, Lazar Atanackovic, Yanlei Zhang, Guillaume Huguet, Guy Wolf, Yoshua Bengio
Simulation-free Schrödinger bridges via score and flow matching. CoRR (2023)
Avishek Joey Bose, Tara Akhound-Sadegh, Kilian Fatras, Guillaume Huguet, Jarrid Rector-Brooks, Cheng-Hao Liu, Andrei Cristian Nica, Maksym Korablyov, Michael M. Bronstein, Alexander Tong
SE(3)-Stochastic Flow Matching for Protein Backbone Generation. CoRR (2023)
Oluwadamilola Fasina, Guillaume Huguet, Alexander Tong, Yanlei Zhang, Guy Wolf, Maximilian Nickel, Ian Adelstein, Smita Krishnaswamy
Neural FIM for learning Fisher Information Metrics from point cloud data. CoRR (2023)
Alexander Tong, Nikolay Malkin, Guillaume Huguet, Yanlei Zhang, Jarrid Rector-Brooks, Kilian Fatras, Guy Wolf, Yoshua Bengio
Conditional Flow Matching: Simulation-Free Dynamic Optimal Transport. CoRR (2023)
Samuel Leone, Aarthi Venkat, Guillaume Huguet, Alexander Tong, Guy Wolf, Smita Krishnaswamy
Graph Fourier MMD for Signals on Graphs. CoRR (2023)
Danqi Liao, Chen Liu, Benjamin W. Christensen, Alexander Tong, Guillaume Huguet, Guy Wolf, Maximilian Nickel, Ian Adelstein, Smita Krishnaswamy
Assessing Neural Network Representations During Training Using Noise-Resilient Diffusion Spectral Entropy. CoRR (2023)
Guillaume Huguet, Alexander Tong, Edward De Brouwer, Yanlei Zhang, Guy Wolf, Ian Adelstein, Smita Krishnaswamy
A Heat Diffusion Perspective on Geodesic Preserving Dimensionality Reduction. NeurIPS (2023)
Oluwadamilola Fasina, Guillaume Huguet, Alexander Tong, Yanlei Zhang, Guy Wolf, Maximilian Nickel, Ian Adelstein, Smita Krishnaswamy
Neural FIM for learning Fisher information metrics from point cloud data. ICML (2023)
Lazar Atanackovic, Alexander Tong, Bo Wang, Leo J. Lee, Yoshua Bengio, Jason S. Hartford
DynGFN: Towards Bayesian Inference of Gene Regulatory Networks with GFlowNets. NeurIPS (2023)
Guillaume Huguet, Alexander Tong, María Ramos Zapatero, Christopher J. Tape, Guy Wolf, Smita Krishnaswamy
Geodesic Sinkhorn For Fast and Accurate Optimal Transport on Manifolds. MLSP (2023)
Guillaume Huguet, Alexander Tong, Bastian Rieck, Jessie Huang, Manik Kuchroo, Matthew J. Hirn, Guy Wolf, Smita Krishnaswamy
Time-Inhomogeneous Diffusion Geometry and Topology. SIAM J. Math. Data Sci. 5 (2) (2023)
Kirill Neklyudov, Rob Brekelmans, Alexander Tong, Lazar Atanackovic, Qiang Liu, Alireza Makhzani
A Computational Framework for Solving Wasserstein Lagrangian Flows. CoRR (2023)
Lazar Atanackovic, Alexander Tong, Jason Hartford, Leo J. Lee, Bo Wang, Yoshua Bengio
DynGFN: Bayesian Dynamic Causal Discovery using Generative Flow Networks. CoRR (2023)
Guillaume Huguet, Alexander Tong, Bastian Rieck, Jessie Huang, Manik Kuchroo, Matthew J. Hirn, Guy Wolf, Smita Krishnaswamy
Time-inhomogeneous diffusion geometry and topology. CoRR (2022)
Alexander Tong, Frederik Wenkel, Dhananjay Bhaskar, Kincaid MacDonald, Jackson D. Grady, Michael Perlmutter, Smita Krishnaswamy, Guy Wolf
Learnable Filters for Geometric Scattering Modules. CoRR (2022)
Alexander Tong, Guillaume Huguet, Dennis L. Shung, Amine Natik, Manik Kuchroo, Guillaume Lajoie, Guy Wolf, Smita Krishnaswamy
Embedding Signals on Graphs with Unbalanced Diffusion Earth Mover's Distance. ICASSP (2022)
Guillaume Huguet, Daniel Sumner Magruder, Alexander Tong, Oluwadamilola Fasina, Manik Kuchroo, Guy Wolf, Smita Krishnaswamy
Manifold Interpolating Optimal-Transport Flows for Trajectory Inference. NeurIPS (2022)
Guillaume Huguet, Alexander Tong, María Ramos Zapatero, Guy Wolf, Smita Krishnaswamy
Geodesic Sinkhorn: optimal transport for high-dimensional datasets. CoRR (2022)
Guillaume Huguet, Daniel Sumner Magruder, Oluwadamilola Fasina, Alexander Tong, Manik Kuchroo, Guy Wolf, Smita Krishnaswamy
Manifold Interpolating Optimal-Transport Flows for Trajectory Inference. CoRR (2022)
Alexander Tong, Guy Wolf, Smita Krishnaswamy
Fixing Bias in Reconstruction-based Anomaly Detection with Lipschitz Discriminators. J. Signal Process. Syst. 94 (2) (2022)
Alexander Tong, Guillaume Huguet, Dennis L. Shung, Amine Natik, Manik Kuchroo, Guillaume Lajoie, Guy Wolf, Smita Krishnaswamy
Embedding Signals on Knowledge Graphs with Unbalanced Diffusion Earth Mover's Distance. CoRR (2021)
Manik Kuchroo, Abhinav Godavarthi, Alexander Tong, Guy Wolf, Smita Krishnaswamy
Multimodal Data Visualization and Denoising with Integrated Diffusion. MLSP (2021)
Michal Gerasimiuk, Dennis L. Shung, Alexander Tong, Adrian J. Stanley, Michael Schultz, Jeffrey Ngu, Loren Laine, Guy Wolf, Smita Krishnaswamy
MURAL: An Unsupervised Random Forest-Based Embedding for Electronic Health Record Data. CoRR (2021)
Malte Lücken, Daniel Burkhardt, Robrecht Cannoodt, Christopher Lance, Aditi Agrawal, Hananeh Aliee, Ann Chen, Louise Deconinck, Angela Detweiler, Alejandro Granados, Shelly Huynh, Laura Isacco, Yang Kim, Dominik Klein, Bony de Kumar, Sunil Kuppasani, Heiko Lickert, Aaron McGeever, Joaquin Melgarejo, Honey Mekonen, Maurizio Morri, Michaela Müller, Norma Neff, Sheryl Paul, Bastian Rieck, Kaylie Schneider, Scott Steelman, Michael Sterr, Daniel Treacy, Alexander Tong, Alexandra-Chloé Villani, Guilin Wang, Jia Yan, Ce Zhang, Angela Pisco, Smita Krishnaswamy, Fabian J. Theis, Jonathan M. Bloom
A sandbox for prediction and integration of DNA, RNA, and proteins in single cells. NeurIPS Datasets and Benchmarks (2021)
Alexander Tong, Guillaume Huguet, Amine Natik, Kincaid MacDonald, Manik Kuchroo, Ronald R. Coifman, Guy Wolf, Smita Krishnaswamy
Diffusion Earth Mover's Distance and Distribution Embeddings. ICML (2021)
Rémi Flamary, Nicolas Courty, Alexandre Gramfort, Mokhtar Z. Alaya, Aurélie Boisbunon, Stanislas Chambon, Laetitia Chapel, Adrien Corenflos, Kilian Fatras, Nemo Fournier, Léo Gautheron, Nathalie T. H. Gayraud, Hicham Janati, Alain Rakotomamonjy, Ievgen Redko, Antoine Rolet, Antony Schutz, Vivien Seguy, Danica J. Sutherland, Romain Tavenard, Alexander Tong, Titouan Vayer
POT: Python Optimal Transport. J. Mach. Learn. Res. 22 (2021)
Alexander Tong, Frederick Wenkel, Kincaid MacDonald, Smita Krishnaswamy, Guy Wolf
Data-Driven Learning of Geometric Scattering Modules for GNNs. MLSP (2021)
Michal Gerasimiuk, Dennis L. Shung, Alexander Tong, Adrian J. Stanley, Michael Schultz, Jeffrey Ngu, Loren Laine, Guy Wolf, Smita Krishnaswamy
MURAL: An Unsupervised Random Forest-Based Embedding for Electronic Health Record Data. IEEE BigData (2021)
Alexander Tong, Guillaume Huguet, Amine Natik, Kincaid MacDonald, Manik Kuchroo, Ronald R. Coifman, Guy Wolf, Smita Krishnaswamy
Diffusion Earth Mover's Distance and Distribution Embeddings. CoRR (2021)
Alexander Tong, Jessie Huang, Guy Wolf, David van Dijk, Smita Krishnaswamy
TrajectoryNet: A Dynamic Optimal Transport Network for Modeling Cellular Dynamics. CoRR (2020)
Egbert Castro, Andrew Benz, Alexander Tong, Guy Wolf, Smita Krishnaswamy
Uncovering the Folding Landscape of RNA Secondary Structure Using Deep Graph Embeddings. IEEE BigData (2020)
Egbert Castro, Andrew Benz, Alexander Tong, Guy Wolf, Smita Krishnaswamy
Uncovering the Folding Landscape of RNA Secondary Structure with Deep Graph Embeddings. CoRR (2020)
Alexander Tong, Jessie Huang, Guy Wolf, David van Dijk, Smita Krishnaswamy
TrajectoryNet: A Dynamic Optimal Transport Network for Modeling Cellular Dynamics. ICML (2020)
Alexander Tong, Guy Wolf, Smita Krishnaswamy
Fixing Bias in Reconstruction-Based Anomaly Detection with Lipschitz Discriminators. MLSP (2020)
Alexander Tong, David van Dijk, Jay S. Stanley III, Matthew Amodio, Kristina Yim, Rebecca Muhle, James Noonan, Guy Wolf, Smita Krishnaswamy
Interpretable Neuron Structuring with Graph Spectral Regularization. IDA (2020)
Alexander Tong, Frederik Wenkel, Kincaid MacDonald, Smita Krishnaswamy, Guy Wolf
Data-Driven Learning of Geometric Scattering Networks. CoRR (2020)
David van Dijk, Daniel B. Burkhardt, Matthew Amodio, Alexander Tong, Guy Wolf, Smita Krishnaswamy
Finding Archetypal Spaces Using Neural Networks. IEEE BigData (2019)
Alexander Tong, Guy Wolf, Smita Krishnaswamy
A Lipschitz-constrained anomaly discriminator framework. CoRR (2019)
David van Dijk, Daniel B. Burkhardt, Matthew Amodio, Alexander Tong, Guy Wolf, Smita Krishnaswamy
Finding Archetypal Spaces for Data Using Neural Networks. CoRR (2019)
James Aspnes, Bernhard Haeupler, Alexander Tong, Philipp Woelfel
Allocate-On-Use Space Complexity of Shared-Memory Algorithms. DISC (2018)
Alexander Tong, David van Dijk, Jay S. Stanley III, Matthew Amodio, Guy Wolf, Smita Krishnaswamy
Graph Spectral Regularization for Neural Network Interpretability. CoRR (2018)