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Related papers: MDGYM: Benchmarking AI Agents on Molecular Simulat…

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Molecular dynamics (MD) simulations are essential for understanding biomolecular systems but remain challenging to automate. Recent advances in large language models (LLM) have demonstrated success in automating complex scientific tasks…

Artificial Intelligence · Computer Science 2025-02-14 Quintina Campbell , Sam Cox , Jorge Medina , Brittany Watterson , Andrew D. White

AI agents could accelerate scientific discovery by automating hypothesis formation, experiment design, coding, execution, and analysis, yet existing benchmarks probe narrow skills in simplified settings. To address this gap, we introduce…

Memory is a central capability for LLM agents operating across long-horizon tasks. Existing memory benchmarks predominantly evaluate retention of personalized information in multi-turn chat scenarios, overlooking the dynamic memory…

Computation and Language · Computer Science 2026-05-21 Wujiang Xu , Yu Wang , Kai Mei , Kaiqu Liang , Zhenting Wang , Mingyu Jin , Han Zhang , Shi-Xiong Zhang , Wenyue Hua , Sambit Sahu , Dimitris N. Metaxas

We introduce ResearchGym, a benchmark and execution environment for evaluating AI agents on end-to-end research. To instantiate this, we repurpose five oral and spotlight papers from ICML, ICLR, and ACL. From each paper's repository, we…

Artificial Intelligence · Computer Science 2026-03-13 Aniketh Garikaparthi , Manasi Patwardhan , Arman Cohan

LLMs and Agents have achieved impressive progress in code generation, mathematical reasoning, and scientific discovery. However, existing benchmarks primarily measure correctness, overlooking the diversity of methods behind solutions. True…

Computation and Language · Computer Science 2026-03-03 Jintian Zhang , Kewei Xu , Jingsheng Zheng , Zhuoyun Yu , Yuqi Zhu , Yujie Luo , Lanning Wei , Shuofei Qiao , Lun Du , Da Zheng , Shumin Deng , Huajun Chen , Ningyu Zhang

Molecular dynamics (MD) simulation is a powerful tool for studying biomolecular structural changes, molecular recognition, transmembrane transport, and functional mechanisms. However, its practical bottleneck lies not only in software…

Quantitative Methods · Quantitative Biology 2026-04-22 Zhenyu Ma , Chunyi Yang , Yuyang Song , Jingyi Zhu , Letian Yang , Limei Xu , Min Xiao , Xukai Jiang

We introduce Meta MLGym and MLGym-Bench, a new framework and benchmark for evaluating and developing LLM agents on AI research tasks. This is the first Gym environment for machine learning (ML) tasks, enabling research on reinforcement…

In this work, we introduce MedAgentSim, an open-source simulated clinical environment with doctor, patient, and measurement agents designed to evaluate and enhance LLM performance in dynamic diagnostic settings. Unlike prior approaches, our…

Computation and Language · Computer Science 2025-10-02 Mohammad Almansoori , Komal Kumar , Hisham Cholakkal

While Large Language Models (LLMs) have demonstrated significant advancements in reasoning and agent-based problem-solving, current evaluation methodologies fail to adequately assess their capabilities: existing benchmarks either rely on…

Designing experiments and result interpretations are core scientific competencies, particularly in biology, where researchers perturb complex systems to uncover the underlying systems. Recent efforts to evaluate the scientific capabilities…

Evaluating the scientific discovery capabilities of large language model based agents, particularly how they cope with varying environmental complexity and utilize prior knowledge, requires specialized benchmarks currently lacking in the…

Machine Learning · Computer Science 2025-10-28 Yimeng Chen , Piotr Piȩkos , Mateusz Ostaszewski , Firas Laakom , Jürgen Schmidhuber

Understanding the world and explaining it with scientific theories is a central aspiration of artificial intelligence research. Proposing theories, designing experiments to test them, and then revising them based on data are fundamental to…

Machine Learning · Computer Science 2025-10-16 Kanishk Gandhi , Michael Y. Li , Lyle Goodyear , Agam Bhatia , Louise Li , Aditi Bhaskar , Mohammed Zaman , Noah D. Goodman

AI agents are increasingly used to diagnose and mitigate failures in production systems, known as agentic Site Reliability Engineering (SRE). Current SRE benchmarks are limited to oversimplistic SRE tasks and are unfortunately hard to…

Artificial Intelligence · Computer Science 2026-05-14 Jackson Clark , Yiming Su , Saad Mohammad Rafid Pial , Yifang Tian , Lily Gniedziejko , Hans-Arno Jacobsen , Yinfang Chen , Tianyin Xu

Large language models (LLMs) are increasingly used as simulated participants in social science experiments, but their behavior is often unstable and highly sensitive to design choices. Prior evaluations frequently conflate base-model…

Artificial Intelligence · Computer Science 2026-02-03 Xuan Liu , Haoyang Shang , Zizhang Liu , Xinyan Liu , Yunze Xiao , Yiwen Tu , Haojian Jin

The rapid advancement of artificial intelligence, particularly autonomous agentic systems based on Large Language Models (LLMs), presents new opportunities to accelerate drug discovery by improving in-silico modeling and reducing dependence…

Current tool-using AI agents suffer from limited action space, context inefficiency, and probabilistic instability that makes them unsuitable for handling repetitive tasks which are otherwise reliably and efficiently tackled by agentic…

Software Engineering · Computer Science 2025-12-19 Nishant Gaurav , Adit Akarsh , Tejas Ravishankar , Manoj Bajaj

LLM agents have incredible potential for scientific discovery applications. However, the performance of LLM agents on real-world, small molecule drug design (SMDD) tasks across diverse chemistries and targets is unclear. Current evaluation…

Artificial Intelligence · Computer Science 2026-05-26 Kevin Han , Renfei Zhang , Kathy Wei , Hamed Mahdavi , Niloofar Mireshghallah , Amir Barati Farimani

Molecular dynamics (MD) simulations are essential for understanding atomic-scale behaviors in materials science, yet writing LAMMPS scripts remains highly specialized and time-consuming tasks. Although LLMs show promise in code generation…

Computational Engineering, Finance, and Science · Computer Science 2026-02-09 Zhuofan Shi , Hubao A , Yufei Shao , Dongliang Huang , Hongxu An , Chunxiao Xin , Haiyang Shen , Zhenyu Wang , Yunshan Na , Gang Huang , Xiang Jing

AI agents have significant potential to reshape cybersecurity, making a thorough assessment of their capabilities critical. However, existing evaluations fall short, because they are based on small-scale benchmarks and only measure static…

Cryptography and Security · Computer Science 2026-03-25 Zhun Wang , Tianneng Shi , Jingxuan He , Matthew Cai , Jialin Zhang , Dawn Song

We introduce OceanGym, the first comprehensive benchmark for ocean underwater embodied agents, designed to advance AI in one of the most demanding real-world environments. Unlike terrestrial or aerial domains, underwater settings present…

Computation and Language · Computer Science 2025-11-26 Yida Xue , Mingjun Mao , Xiangyuan Ru , Yuqi Zhu , Baochang Ren , Shuofei Qiao , Mengru Wang , Shumin Deng , Xinyu An , Ningyu Zhang , Ying Chen , Huajun Chen
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