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Molecular dynamics (MD) simulations allow investigating the structural dynamics of biomolecular systems with unrivaled time and space resolution. However, in order to compensate for the inaccuracies of the utilized empirical force fields,…

Computational Physics · Physics 2018-02-12 Andrea Cesari , Sabine Reißer , Giovanni Bussi

Mathematical modeling is a cornerstone of scientific discovery and engineering practice, enabling the translation of real-world problems into formal systems across domains such as physics, biology, and economics. Unlike mathematical…

Artificial Intelligence · Computer Science 2025-05-21 Fan Liu , Zherui Yang , Cancheng Liu , Tianrui Song , Xiaofeng Gao , Hao Liu

This paper presents BattleAgent, an emulation system that combines the Large Vision-Language Model and Multi-agent System. This novel system aims to simulate complex dynamic interactions among multiple agents, as well as between agents and…

Human-Computer Interaction · Computer Science 2024-04-25 Shuhang Lin , Wenyue Hua , Lingyao Li , Che-Jui Chang , Lizhou Fan , Jianchao Ji , Hang Hua , Mingyu Jin , Jiebo Luo , Yongfeng Zhang

In this paper we introduce ResearchCodeAgent, a novel multi-agent system leveraging large language models (LLMs) agents to automate the codification of research methodologies described in machine learning literature. The system bridges the…

Software Engineering · Computer Science 2025-05-06 Shubham Gandhi , Dhruv Shah , Manasi Patwardhan , Lovekesh Vig , Gautam Shroff

Accurate prediction of molecular properties in complex chemical systems is crucial for accelerating material discovery and chemical innovation. However, current computational methods often struggle to capture the intricate compositional…

Chemical Physics · Physics 2025-09-24 Jinming Fan , Chao Qian , Shaodong Zhou

Molecular Dynamics (MD) simulations are ubiquitous in cutting-edge physio-chemical research. They provide critical insights into how a physical system evolves over time given a model of interatomic interactions. Understanding a system's…

Computational Physics · Physics 2023-09-06 Rostyslav Hnatyshyn , Jieqiong Zhao , Danny Perez , James Ahrens , Ross Maciejewski

A novel simulator called VMAgent is introduced to help RL researchers better explore new methods, especially for virtual machine scheduling. VMAgent is inspired by practical virtual machine (VM) scheduling tasks and provides an efficient…

Machine Learning · Computer Science 2021-12-10 Junjie Sheng , Shengliang Cai , Haochuan Cui , Wenhao Li , Yun Hua , Bo Jin , Wenli Zhou , Yiqiu Hu , Lei Zhu , Qian Peng , Hongyuan Zha , Xiangfeng Wang

With the rapid advancement of computational techniques, Molecular Dynamics (MD) simulations have emerged as powerful tools in biomedical research, enabling in-depth investigations of biological systems at the atomic level. Among the diverse…

Biomolecules · Quantitative Biology 2024-09-05 Reza Bozorgpour

Agent-based modeling (ABM) is a powerful computational approach for studying complex biological and biomedical systems, yet its widespread use remains limited by significant computational demands. As models become increasingly…

Quantitative Methods · Quantitative Biology 2025-04-17 Kerri-Ann Norton , Daniel Bergman , Harsh Vardhan Jain , Trachette Jackson

There is an increasing demand for computing the relevant structures, equilibria and long-timescale kinetics of biomolecular processes, such as protein-drug binding, from high-throughput molecular dynamics simulations. Current methods employ…

Machine Learning · Statistics 2018-02-07 Andreas Mardt , Luca Pasquali , Hao Wu , Frank Noé

The proliferation of large language models (LLMs) has accelerated the adoption of agent-based workflows, where multiple autonomous agents reason, invoke functions, and collaborate to compose complex data pipelines. However, current…

Databases · Computer Science 2025-12-15 Zoi Kaoudi , Ioana Giurgiu

Molecular dynamics (MD) simulations and computer-aided drug design (CADD) have advanced substantially over the past two decades, thanks to continuous computer hardware and software improvements. Given these advancements, MD simulations are…

Quantitative Methods · Quantitative Biology 2023-11-29 Mayar Ahmed , Alex M. Maldonado , Jacob D. Durrant

The aerodynamic design of turbomachinery is a complex and tightly coupled multi-stage process involving geometry generation, performance prediction, optimization, and high-fidelity physical validation. Existing intelligent design approaches…

Artificial Intelligence · Computer Science 2026-04-10 Juan Du , Yueteng Wu , Pan Zhao , Yuze Liu , Min Zhang , Xiaobin Xu , Xinglong Zhang

We introduce CFDagent, a zero-shot, multi-agent system that enables fully autonomous computational fluid dynamics (CFD) simulations from natural language prompts. CFDagent integrates three specialized LLM-driven agents: (i) the…

Fluid Dynamics · Physics 2025-11-13 Zhaoyue Xu , Long Wang , Chunyu Wang , Yixin Chen , Qingyong Luo , Hua-Dong Yao , Shizhao Wang , Guowei He

LLM-based multimodal emotion recognition relies on static parametric memory and often hallucinates when interpreting nuanced affective states. In this paper, given that single-round retrieval-augmented generation is highly susceptible to…

Computer Vision and Pattern Recognition · Computer Science 2026-04-15 Zeheng Wang , Zitong Yu , Yijie Zhu , Bo Zhao , Haochen Liang , Taorui Wang , Wei Xia , Jiayu Zhang , Zhishu Liu , Hui Ma , Fei Ma , Qi Tian

Recent advances in AI and ML have transformed data science, yet increasing complexity and expertise requirements continue to hinder progress. Although crowd-sourcing platforms alleviate some challenges, high-level machine learning…

Molecular dynamics (MD) simulations employing classical force fields constitute the cornerstone of contemporary atomistic modeling in chemistry, biology, and materials science. However, the predictive power of these simulations is only as…

Chemical Physics · Physics 2018-09-26 Stefan Chmiela , Huziel E. Sauceda , Klaus-Robert Müller , Alexandre Tkatchenko

Student simulation in online education is important to address dynamic learning behaviors of students with diverse backgrounds. Existing simulation models based on deep learning usually need massive training data, lacking prior knowledge in…

Computers and Society · Computer Science 2024-04-12 Songlin Xu , Xinyu Zhang , Lianhui Qin

Recent advancements in Multi-modal Large Language Models (MLLMs) have significantly improved their performance in tasks combining vision and language. However, challenges persist in detailed multi-modal understanding, comprehension of…

Computation and Language · Computer Science 2024-05-29 Somnath Kumar , Yash Gadhia , Tanuja Ganu , Akshay Nambi

Molecular dynamics (MD) simulation is essential for various scientific domains but computationally expensive. Learning-based force fields have made significant progress in accelerating ab-initio MD simulation but are not fast enough for…

Machine Learning · Computer Science 2023-08-29 Xiang Fu , Tian Xie , Nathan J. Rebello , Bradley D. Olsen , Tommi Jaakkola