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The true power of computational research typically can lay in either what it accomplishes or what it enables others to accomplish. In this work, both avenues are simultaneously embraced across several distinct efforts existing at three…

Materials Science · Physics 2024-11-06 Adam M. Krajewski

Advancing trustworthy AI requires principled software engineering approaches to model evaluation. Graph Neural Networks (GNNs) have achieved remarkable success in processing graph-structured data, however, their expressiveness in capturing…

Machine Learning · Computer Science 2026-03-03 Sicong Che , Jiayi Yang , Sarfraz Khurshid , Wenxi Wang

Graph neural networks (GNNs) have emerged as powerful tools for learning protein structures by capturing spatial relationships at the residue level. However, existing GNN-based methods often face challenges in learning multiscale…

Machine Learning · Computer Science 2026-02-03 Shih-Hsin Wang , Yuhao Huang , Taos Transue , Justin Baker , Jonathan Forstater , Thomas Strohmer , Bao Wang

Data driven approaches have the potential to make modeling complex, nonlinear physical phenomena significantly more computationally tractable. For example, computational modeling of fracture is a core challenge where machine learning…

Machine Learning · Computer Science 2025-10-01 Erfan Hamdi , Emma Lejeune

We propose a scalable and cost-efficient framework for deploying Graph-based Retrieval-Augmented Generation (GraphRAG) in enterprise environments. While GraphRAG has shown promise for multi- hop reasoning and structured retrieval, its…

Artificial Intelligence · Computer Science 2025-12-19 Congmin Min , Sahil Bansal , Joyce Pan , Abbas Keshavarzi , Rhea Mathew , Amar Viswanathan Kannan

Here, we develop a framework for the prediction and screening of native defects and functional impurities in a chemical space of Group IV, III-V, and II-VI zinc blende (ZB) semiconductors, powered by crystal Graph-based Neural Networks…

Interatomic potentials (IAPs), which describe the potential energy surface of atoms, are a fundamental input for atomistic simulations. However, existing IAPs are either fitted to narrow chemistries or too inaccurate for general…

Materials Science · Physics 2022-12-06 Chi Chen , Shyue Ping Ong

Graph neural networks (GNN) have been shown to provide substantial performance improvements for atomistic material representation and modeling compared with descriptor-based machine learning models. While most existing GNN models for…

Materials Science · Physics 2022-04-08 Kamal Choudhary , Brian DeCost

Predicting relaxed atomic structures of chemically complex materials remains a major computational challenge, particularly for high-entropy systems where traditional first-principles methods become prohibitively expensive. We introduce the…

Disordered Systems and Neural Networks · Physics 2025-12-09 Neethu Mohan Mangalassery , Abhishek Kumar Singh

The prediction of the atomistic structure and properties of crystals including defects based on ab-initio accurate simulations is essential for unraveling the nano-scale mechanisms that control the micromechanical and macroscopic behaviour…

We derive and implement analytic nuclear gradients and derivative couplings for a constrained Complete Active Space Self-Consistent Field with a small active space designed to model electron or hole transfer. Using a Lagrangian formalism,…

Computational Physics · Physics 2025-09-01 Tian Qiu , Joseph E. Subotnik

Large-scale first principles molecular dynamics are crucial for simulating complex processes in chemical, biomedical, and materials sciences. However, the unfavorable time complexity with respect to system sizes leads to prohibitive…

Graph neural architecture search (GraphNAS) has recently aroused considerable attention in both academia and industry. However, two key challenges seriously hinder the further research of GraphNAS. First, since there is no consensus for the…

Machine Learning · Computer Science 2024-03-12 Yijian Qin , Ziwei Zhang , Xin Wang , Zeyang Zhang , Wenwu Zhu

Evaluation of foundation models often rely on aggregate scores from benchmarks that lack comprehensive coverage and metadata for a fine-grained evaluation. We introduce a framework for automated benchmark generation. Our framework generates…

Machine learning potentials (MLPs) have become an indispensable tool in large-scale atomistic simulations because of their ability to reproduce ab initio potential energy surfaces (PESs) very accurately at a fraction of computational cost.…

Computational Physics · Physics 2024-09-04 Tsz Wai Ko , Shyue Ping Ong

Deep learning, through the use of neural networks, has demonstrated remarkable ability to automate many routine tasks when presented with sufficient data for training. The neural network architecture (e.g. number of layers, types of layers,…

We introduce ProteinWorkshop, a comprehensive benchmark suite for representation learning on protein structures with Geometric Graph Neural Networks. We consider large-scale pre-training and downstream tasks on both experimental and…

We propose DFModel, a modeling framework for mapping dataflow computation graphs onto large-scale systems. Mapping a workload to a system requires optimizing dataflow mappings at various levels, including the inter-chip (between chips)…

Hardware Architecture · Computer Science 2024-12-24 Sho Ko , Nathan Zhang , Olivia Hsu , Ardavan Pedram , Kunle Olukotun

High-entropy materials (HEMs) have recently emerged as a significant category of materials, offering highly tunable properties. However, the scarcity of HEM data in existing density functional theory (DFT) databases, primarily due to…

Materials Science · Physics 2024-06-04 Kangming Li , Kamal Choudhary , Brian DeCost , Michael Greenwood , Jason Hattrick-Simpers

Graph Neural Networks (GNNs) are becoming increasingly popular for graph-based learning tasks such as point cloud processing due to their state-of-the-art (SOTA) performance. Nevertheless, the research community has primarily focused on…

Machine Learning · Computer Science 2024-08-26 Ao Zhou , Jianlei Yang , Yingjie Qi , Tong Qiao , Yumeng Shi , Cenlin Duan , Weisheng Zhao , Chunming Hu
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