From Molecules to Materials: Pre-training Large Generalizable Models for Atomic Property Prediction
Nima Shoghi, Adeesh Kolluru, John R. Kitchin, Zachary W. Ulissi, C. Lawrence Zitnick, Brandon M. Wood
Abstract
Foundation models have been transformational in machine learning fields such as natural language processing and computer vision. Similar success in atomic property prediction has been limited due to the challenges of training effective models across multiple chemical domains. To address this, we introduce Joint Multi-domain Pre-training (JMP), a supervised pre-training strategy that simultaneously trains on multiple datasets from different chemical domains, treating each dataset as a unique pre-training task within a multi-task framework. Our combined training dataset consists of 120M systems from OC20, OC22, ANI-1x, and Transition-1x. We evaluate performance and generalization by fine-tuning over a diverse set of downstream tasks and datasets including: QM9, rMD17, MatBench, QMOF, SPICE, and MD22. JMP demonstrates an average improvement of 59% over training from scratch, and matches or sets state-of-the-art on 34 out of 40 tasks. Our work highlights the potential of pre-training strategies that utilize diverse data to advance property prediction across chemical domains, especially for low-data tasks. Please visit https://nima.sh/jmp for further information.
Ask about this paper
Your agent reads all of it.
Lune indexed this paper to the last equation, along with the top-tier papers that cite it. Ask a question and the answer quotes them.
Your agent calls
Luneget_paper_fulltext
Free to start. No credit card required.
Terminal
Install the CLIlune papers fulltext 81e83e4b-a4c3-4041-b84a-3f7b7f933b73Cited by top-tier papers13
- UMA: A Family of Universal Models for AtomsBrandon M. Wood, Misko Dzamba, Xiang Fu, Meng Gao et al.NeurIPS 2025 · 282 citations
- Doob's Lagrangian: A Sample-Efficient Variational Approach to Transition Path SamplingYuanqi Du, Michael Plainer, Rob Brekelmans, Chenru Duan et al.NeurIPS 2024 · 41 citations
- Long-Short-Range Message-Passing: A Physics-Informed Framework to Capture Non-Local Interaction for Scalable Molecular Dynamics SimulationYunyang Li, Yusong Wang, Lin Huang, Han Yang et al.ICLR 2024 · 31 citations
- AdsorbDiff: Adsorbate Placement via Conditional Denoising DiffusionAdeesh Kolluru, John R. KitchinICML 2024 · 11 citations
- Towards Fast, Specialized Machine Learning Force Fields: Distilling Foundation Models via Energy HessiansIshan Amin, Sanjeev Raja, Aditi S. KrishnapriyanICLR 2025 · 5 citations
Builds on15
- Denoising Diffusion Implicit ModelsJiaming Song, Chenlin Meng, Stefano ErmonICLR 2021 · 11,743 citations
- Gradient Surgery for Multi-Task LearningTianhe Yu, Saurabh Kumar, Abhishek Gupta, Sergey Levine et al.NeurIPS 2020 · 2,261 citations
- Directional Message Passing for Molecular GraphsJohannes Klicpera, Janek Groß, Stephan GünnemannICLR 2020 · 1,079 citations
- GemNet: Universal Directional Graph Neural Networks for MoleculesJohannes Gasteiger, Florian Becker, Stephan GünnemannNeurIPS 2021 · 665 citations
- Pre-training Molecular Graph Representation with 3D GeometryShengchao Liu, Hanchen Wang, Weiyang Liu, Joan Lasenby et al.ICLR 2022 · 440 citations
Related papers
- Multiple Physics Pretraining for Spatiotemporal Surrogate ModelsMichael McCabe, Bruno Régaldo-Saint Blancard, Liam Holden Parker, Ruben Ohana et al.NeurIPS 2024 · 97 citations
- Unifying Molecular and Textual Representations via Multi-task Language ModellingDimitrios Christofidellis, Giorgio Giannone, Jannis Born, Ole Winther et al.ICML 2023 · 126 citations
- UniSim: A Unified Simulator for Time-Coarsened Dynamics of BiomoleculesZiyang Yu, Wenbing Huang, Yang LiuICML 2025
- Towards Foundational Models for Molecular Learning on Large-Scale Multi-Task DatasetsDominique Beaini, Shenyang Huang, Joao Alex Cunha, Zhiyi Li et al.ICLR 2024 · 39 citations
- MoMa: A Simple Modular Learning Framework for Material Property PredictionBotian Wang, Yawen Ouyang, Yaohui Li, Mianzhi Pan et al.ICLR 2026
