mlsanityData to 7 Oct 2026

Doob's Lagrangian: A Sample-Efficient Variational Approach to Transition Path Sampling

arXiv 2410.07974 ↗First posted 10 Oct 2024cs.LG cs.AI physics.bio-phcited by 25

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Abstract (arXiv)

Rare event sampling in dynamical systems is a fundamental problem arising in the natural sciences, which poses significant computational challenges due to an exponentially large space of trajectories. For settings where the dynamical system of interest follows a Brownian motion with known drift, the question of conditioning the process to reach a given endpoint or desired rare event is definitively answered by Doob's h-transform. However, the naive estimation of this transform is infeasible, as it requires simulating sufficiently many forward trajectories to estimate rare event probabilities. In this work, we propose a variational formulation of Doob's h-transform as an optimization problem over trajectories between a given initial point and the desired ending point. To solve this optimization, we propose a simulation-free training objective with a model parameterization that imposes the desired boundary conditions by design. Our approach significantly reduces the search space over trajectories and avoids expensive trajectory simulation and inefficient importance sampling estimators which are required in existing methods. We demonstrate the ability of our method to find feasible transition paths on real-world molecular simulation and protein folding tasks.

Key facts. Cited by 25 papers in the map (data through 7 Oct 2026). Builds on 27 of its 84 references that are in the map. First posted on arXiv 10 Oct 2024.

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27 of 84 references.

References · 27

  1. 2022Flow Matching for Generative Modelingcited by 5,426
  2. 2016The Concrete Distribution: A Continuous Relaxation of Discrete Random Variablescited by 1,135
  3. 2021Diffusion Schr"odinger Bridge with Applications to Score-Based Generative Modelingcited by 594
  4. 2013A survey of the Schr"odinger problem and some of its connections with optimal transportcited by 286
  5. 2021Likelihood Training of Schr"odinger Bridge using Forward-Backward SDEs Theorycited by 216
  6. 2023Diffusion Schr"odinger Bridge Matchingcited by 151
  7. 2022Diffusion-based Molecule Generation with Informative Prior Bridgescited by 104
  8. 2022Let us Build Bridges: Understanding and Extending Diffusion Generative Modelscited by 102
  9. 2014On the relation between optimal transport and Schr"odinger bridges: A stochastic control viewpointcited by 99
  10. 2022Action Matching: Learning Stochastic Dynamics from Samplescited by 94
  11. 2023Diffusion Bridge Mixture Transports, Schr"odinger Bridge Problems and Generative Modelingcited by 80
  12. 2017DeePMD-kit: A deep learning package for many-body potential energy representation and molecular dynamicscited by 79
15 more
  1. 2021SE(3) Equivariant Graph Neural Networks with Complete Local Framescited by 75
  2. 2023Non-Denoising Forward-Time Diffusionscited by 75
  3. 2021Simulating Diffusion Bridges with Score Matchingcited by 51
  4. 2023A Computational Framework for Solving Wasserstein Lagrangian Flowscited by 43
  5. 2023Generalized Schr"odinger Bridge Matchingcited by 40
  6. 2023From Molecules to Materials: Pre-training Large Generalizable Models for Atomic Property Predictioncited by 39
  7. 2023Aligned Diffusion Schr"odinger Bridgescited by 38
  8. 2022Stochastic Optimal Control for Collective Variable Free Sampling of Molecular Transition Pathscited by 36
  9. 2020A reinforcement learning approach to rare trajectory samplingcited by 21
  10. 2023Augmented Bridge Matchingcited by 21
  11. 2021Reinforcement learning of rare diffusive dynamicscited by 14
  12. 2020Molecular Latent Space Simulatorscited by 13
  13. 2023Transition Path Sampling with Boltzmann Generator-based MCMC Movescited by 8
  14. 2022Generative methods for sampling transition paths in molecular dynamicscited by 6
  15. 2022Conditioning Normalizing Flows for Rare Event Samplingcited by 5

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Cited by year (2026 to 7 Oct)

Citing papers per year: 2024: 1; 2025: 17; 2026: 7.

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  1. 2025No Trick, No Treat: Pursuits and Challenges Towards Simulation-free Training of Neural Samplerscited by 25
  2. 2025Consistent Sampling and Simulation: Molecular Dynamics with Energy-Based Diffusion Modelscited by 23
  3. 2025Trust Region Constrained Measure Transport in Path Space for Stochastic Optimal Control and Inferencecited by 22
  4. 2025SDE Matching: Scalable and Simulation-Free Training of Latent Stochastic Differential Equationscited by 19
  5. 2025Action-Minimization Meets Generative Modeling: Efficient Transition Path Sampling with the Onsager-Machlup Functionalcited by 18
  6. 2025Conditioning Diffusions Using Malliavin Calculuscited by 15
  7. 2026Conditional Diffusion Guidance under Hard Constraint: A Stochastic Analysis Approachcited by 10
  8. 2025ConfRover: Simultaneous Modeling of Protein Conformation and Dynamics via Autoregressioncited by 7
  9. 2025UniSim: A Unified Simulator for Time-Coarsened Dynamics of Biomoleculescited by 7
  10. 2025The Spacetime of Diffusion Models: An Information Geometry Perspectivecited by 6
  11. 2025Control Consistency Losses for Diffusion Bridgescited by 6
  12. 2024Generalized Flow Matching for Transition Dynamics Modelingcited by 4
13 more
  1. 2025Functional Adjoint Sampler: Scalable Sampling on Infinite Dimensional Spacescited by 4
  2. 2025Implicit Neural Representations for Chemical Reaction Pathscited by 3
  3. 2025Transferable Learning of Reaction Pathways from Geometric Priorscited by 2
  4. 2026FragmentFlow: Scalable Transition State Generation for Large Moleculescited by 2
  5. 2025Flows and Diffusions on the Neural Manifoldcited by 1
  6. 2025Entangled Schr"odinger Bridge Matchingcited by 1
  7. 2026Analytic Bridge Diffusions for Controlled Path Generationcited by 1
  8. 2026Intrinsic-Noise Consolidation: A Doob-Barrier-Conditioned Diffusion Turns Analog Device Noise into a Continual-Learning Resourcecited by 1
  9. 2026Twisted Schr"odinger Bridge Matchingcited by 1
  10. 2025Follow the MEP: Scalable Neural Representations for Minimum-Energy Path Discovery in Molecular Systemscited by 0
  11. 2025Machine-Learned Sampling of Conditioned Path Measurescited by 0
  12. 2026Stochastic Control Policies for Robust Molecular Transition Path Samplingcited by 0
  13. 2026Machine learning kinetics from molecular dynamics datacited by 0