Scalable Training of Trustworthy and Energy-Efficient Predictive Graph Foundation Models for Atomistic Materials Modeling: A Case Study with HydraGNN
Not on the map. Why?
Abstract (arXiv)
We present our work on developing and training scalable, trustworthy, and energy-efficient predictive graph foundation models (GFMs) using HydraGNN, a multi-headed graph convolutional neural network architecture. HydraGNN expands the boundaries of graph neural network (GNN) computations in both training scale and data diversity. It abstracts over message passing algorithms, allowing both reproduction of and comparison across algorithmic innovations that define nearest-neighbor convolution in GNNs. This work discusses a series of optimizations that have allowed scaling up the GFMs training to tens of thousands of GPUs on datasets consisting of hundreds of millions of graphs. Our GFMs use multi-task learning (MTL) to simultaneously learn graph-level and node-level properties of atomistic structures, such as energy and atomic forces. Using over 154 million atomistic structures for training, we illustrate the performance of our approach along with the lessons learned on two state-of-the-art United States Department of Energy (US-DOE) supercomputers, namely the Perlmutter petascale system at the National Energy Research Scientific Computing Center and the Frontier exascale system at Oak Ridge Leadership Computing Facility. The HydraGNN architecture enables the GFM to achieve near-linear strong scaling performance using more than 2,000 GPUs on Perlmutter and 16,000 GPUs on Frontier.
Key facts. Cited by 8 papers in the map (data through 14 Oct 2026). Builds on 41 of its 101 references that are in the map. First posted on arXiv 12 Jun 2024.
Builds on
41 of 101 references.
References · 41
- 2017Attention Is All You Needcited by 60,361
- 2018BERT: Pre-training of Deep Bidirectional Transformers for Language Understandingcited by 40,399
- 2020Language Models are Few-Shot Learnerscited by 32,419
- 2019PyTorch: An Imperative Style, High-Performance Deep Learning Librarycited by 20,305
- 2019Exploring the Limits of Transfer Learning with a Unified Text-to-Text Transformercited by 14,599
- 2019RoBERTa: A Robustly Optimized BERT Pretraining Approachcited by 13,372
- 2019Fast Graph Representation Learning with PyTorch Geometriccited by 2,434
- 2017Accurate, Large Minibatch SGD: Training ImageNet in 1 Hourcited by 1,492
- 2019SciBERT: A Pretrained Language Model for Scientific Textcited by 1,414
- 2021E(3)-Equivariant Graph Neural Networks for Data-Efficient and Accurate Interatomic Potentialscited by 708
- 2017SchNet: A continuous-filter convolutional neural network for modeling quantum interactionscited by 571
- 2020ChemBERTa: Large-Scale Self-Supervised Pretraining for Molecular Property Predictioncited by 337
29 more
- 2020The Open Catalyst 2020 (OC20) Dataset and Community Challengescited by 246
- 2020Hyper-Parameter Optimization: A Review of Algorithms and Applicationscited by 114
- 2015Batch Bayesian Optimization via Local Penalizationcited by 104
- 2022The Open Catalyst 2022 (OC22) Dataset and Challenges for Oxide Electrocatalystscited by 95
- 2020PyTorch Distributed: Experiences on Accelerating Data Parallel Trainingcited by 90
- 2021ClimateBert: A Pretrained Language Model for Climate-Related Textcited by 90
- 2024Position: Graph Foundation Models are Already Herecited by 86
- 2021MatSciBERT: A Materials Domain Language Model for Text Mining and Information Extractioncited by 83
- 2024Scientific Large Language Models: A Survey on Biological & Chemical Domainscited by 80
- 2023Uncertainty Quantification over Graph with Conformalized Graph Neural Networkscited by 79
- 2016By-passing the Kohn-Sham equations with machine learningcited by 67
- 2020Uncertainty Quantification Using Neural Networks for Molecular Property Predictioncited by 66
- 2021DistGNN: Scalable Distributed Training for Large-Scale Graph Neural Networkscited by 59
- 2022polyBERT: A chemical language model to enable fully machine-driven ultrafast polymer informaticscited by 48
- 2023Towards Foundational Models for Molecular Learning on Large-Scale Multi-Task Datasetscited by 39
- 2021DGL-LifeSci: An Open-Source Toolkit for Deep Learning on Graphs in Life Sciencecited by 38
- 2024On the Scalability of GNNs for Molecular Graphscited by 36
- 2021AutoDEUQ: Automated Deep Ensemble with Uncertainty Quantificationcited by 31
- 2023Scaling Laws for Hyperparameter Optimizationcited by 16
- 2022The Open MatSci ML Toolkit: A Flexible Framework for Machine Learning in Materials Sciencecited by 14
- 2023MatSciML: A Broad, Multi-Task Benchmark for Solid-State Materials Modelingcited by 14
- 2022SsciBERT: A Pre-trained Language Model for Social Science Textscited by 12
- 2023Tune As You Scale: Hyperparameter Optimization For Compute Efficient Trainingcited by 9
- 2021MuyGPs: Scalable Gaussian Process Hyperparameter Estimation Using Local Cross-Validationcited by 8
- 2022Multi-task graph neural networks for simultaneous prediction of global and atomic properties in ferromagnetic systemscited by 6
- 2024The Unreasonable Effectiveness Of Early Discarding After One Epoch In Neural Network Hyperparameter Optimizationcited by 5
- 2023Transfer learning for atomistic simulations using GNNs and kernel mean embeddingscited by 4
- 2022OpenGlue: Open Source Graph Neural Net Based Pipeline for Image Matchingcited by 3
- 2022Scalable training of graph convolutional neural networks for fast and accurate predictions of HOMO-LUMO gap in moleculescited by 3
Built on by
Citing papers per year: 2025: 5; 2026: 3.
8 papers.
- 2025MatterTune: An Integrated, User-Friendly Platform for Fine-Tuning Atomistic Foundation Models to Accelerate Materials Simulation and Discoverycited by 5
- 2025Optimizing Data Distribution and Kernel Performance for Efficient Training of Chemistry Foundation Models: A Case Study with MACEcited by 1
- 2025Multi-task parallelism for robust pre-training of graph foundation models on multi-source, multi-fidelity atomistic modeling datacited by 1
- 2026Automated Data Readiness for Scientific AIcited by 1
- 2025Ensemble Knowledge Distillation for Machine Learning Interatomic Potentialscited by 0
- 2025When Does Global Attention Help? A Unified Empirical Study on Atomistic Graph Learningcited by 0
- 2026Exascale Multi-Task Graph Foundation Models for Imbalanced, Multi-Fidelity Atomistic Datacited by 0
- 2026SetGo: Metadata Readiness for Scientific AI Datasetscited by 0
- 2026SetGo: Metadata Readiness for Scientific AI Datasets10 Jul 2026
- 2026Automated Data Readiness for Scientific AI2 Jul 2026
- 2026Exascale Multi-Task Graph Foundation Models for Imbalanced, Multi-Fidelity Atomistic Data15 Apr 2026
- 2025When Does Global Attention Help? A Unified Empirical Study on Atomistic Graph Learning7 Oct 2025
- 2025Multi-task parallelism for robust pre-training of graph foundation models on multi-source, multi-fidelity atomistic modeling data26 Jun 2025
- 2025Optimizing Data Distribution and Kernel Performance for Efficient Training of Chemistry Foundation Models: A Case Study with MACE14 Apr 2025
- 2025MatterTune: An Integrated, User-Friendly Platform for Fine-Tuning Atomistic Foundation Models to Accelerate Materials Simulation and Discovery14 Apr 2025
- 2025Ensemble Knowledge Distillation for Machine Learning Interatomic Potentials18 Mar 2025