The YZ Lab

Our lab develops novel machine learning methodologies motivated by challenges in biomedical discovery and scientific understanding. We are particularly interested in integrating ideas from geometry, dynamical systems, optimal transport, and representation learning to build mathematically grounded AI systems for complex biological and high-dimensional data.

Our current research focuses include:

  • Generative AI: Flow matching, diffusion models, and optimal transport for cellular dynamics and trajectory inference
  • Geometric Deep Learning: Diffusion geometry and manifold learning for single-cell and high-dimensional biomedical data
  • Signal Processing: Graph signal processing and PDE-inspired methods for molecular and structural biology
  • Brain Decoding: Neural representation learning and dynamical analysis of brain activity and neural systems
  • Learning Theory: Theoretical foundations of machine learning, including geometry-aware learning and information-theoretic approaches

By bridging modern machine learning with advanced mathematics, our goal is to develop robust, interpretable, and scientifically meaningful AI methods that advance biomedical research and our understanding of complex systems.

:mortar_board: We are hiring PhDs, Postdocs, & Visiting Researchers! Contact Us or Join Us if you are interested!

News

May 28, 2026 I will be joining the School of Computing at Queen’s University as an Assistant Professor starting July 2026. :mortar_board:
May 28, 2026 New preprint on Path-independent Multi-parameter Flow Matching is available on arXiv: PiFM. :scroll:
May 01, 2025 Paper accepted at ICASSP 2025: Principal Curvatures Estimation with Applications to Single Cell Data. :dna:
Apr 01, 2025 Paper accepted at Frontiers in Psychiatry: Deep Multimodal Representations and Classification of First-Episode Psychosis via Live Face Processing. :brain:
Jan 15, 2025 Paper accepted at ICLR 2025: AdaFisher: Adaptive Second Order Optimization via Fisher Information. :mortar_board:

Selected Publications

  1. ICLR
    AdaFisher: Adaptive Second Order Optimization via Fisher Information
    Daniel M. Gomes, Yanlei Zhang, Eugene Belilovsky, Guy Wolf, and Mahdi S. Hosseini
    In International Conference on Learning Representations , 2025
  2. Geometry-Aware Generative Autoencoders for Warped Riemannian Metric Learning and Generative Modeling on Data Manifolds
    Xingzhi Sun, Danqi Liao, Kincaid MacDonald, Yanlei Zhang, Chen Liu, Guillaume Huguet, Guy Wolf, Ian Adelstein, Tim G. J. Rudner, and Smita Krishnaswamy
    In International Conference on Artificial Intelligence and Statistics , 2025
  3. ICASSP
    Principal Curvatures Estimation with Applications to Single Cell Data
    Yanlei Zhang, Léo Mezrag, Xingzhi Sun, Chuangqi Xu, Kincaid Macdonald, Dhananjay Bhaskar, Smita Krishnaswamy, Guy Wolf, and Bastian Rieck
    In IEEE International Conference on Acoustics, Speech and Signal Processing , 2025
  4. Front. Psych.
    Deep Multimodal Representations and Classification of First-Episode Psychosis via Live Face Processing
    Rohan Singh, Yanlei Zhang, Dhananjay Bhaskar, Vinod Srihari, Cenk Tek, Xiaodong Zhang, J. Adam Noah, Smita Krishnaswamy, and Joy Hirsch
    Frontiers in Psychiatry, 2025
  5. IEEE TPAMI
    Neural FIM: Bridging Statistical Manifolds and Generative Modeling through Fisher Geometry
    Yanlei Zhang, Guillaume Huguet, Edward De Brouwer, Oluwaseun Fasina, Alexander Tong, Ricky T. Q. Chen, Guy Wolf, Maximilian Nickel, Ian Adelstein, and Smita Krishnaswamy
    IEEE Transactions on Pattern Analysis and Machine Intelligence, 2025
    Under Review
  6. Nat. Comp. Sci.
    Neurospectrum: A Geometric and Topological Deep Learning Framework for Uncovering Spatiotemporal Signatures in Neural Activity
    Dhananjay Bhaskar, Yanlei Zhang, Jason Moore, Feng Gao, Bastian Rieck, Guy Wolf, Firas Khasawneh, Elizabeth Munch, J. Adam Noah, Helen Pushkarskaya, Christopher Pittenger, Valentina Greco, and Smita Krishnaswamy
    Nature Computational Science, 2025
    Under Review
  7. A Heat Diffusion Perspective on Geodesic Preserving Dimensionality Reduction
    Guillaume Huguet, Alexander Tong, Edward De Brouwer, Yanlei Zhang, Guy Wolf, Ian Adelstein, and Smita Krishnaswamy
    In Advances in Neural Information Processing Systems , 2023
  8. Neural FIM for Learning Fisher Information Metrics from Point Cloud Data
    Oluwaseun Fasina, Guillaume Huguet, Alexander Tong, Yanlei Zhang, Guy Wolf, Maximilian Nickel, Ian Adelstein, and Smita Krishnaswamy
    In International Conference on Machine Learning , 2023
  9. Simulation-Free Schrödinger Bridges via Score and Flow Matching
    Alexander Tong, Nikolay Malkin, Kilian Fatras, Lazar Atanackovic, Yanlei Zhang, Guillaume Huguet, Guy Wolf, and Yoshua Bengio
    In International Conference on Artificial Intelligence and Statistics , 2023
  10. TMLR
    Improving and Generalizing Flow-Based Generative Models with Minibatch Optimal Transport
    Alexander Tong, Nikolay Malkin, Guillaume Huguet, Yanlei Zhang, Jarrid Rector-Brooks, Kilian Fatras, Guy Wolf, and Yoshua Bengio
    Transactions on Machine Learning Research, 2023

Feature Talks

  • Coming soon!