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Large Language models (LLMs) have emerged as powerful tools for addressing challenges across diverse domains. Notably, recent studies have demonstrated that large language models significantly enhance the efficiency of biomolecular analysis…

Computation and Language · Computer Science 2025-03-07 Jiyue Jiang , Zikang Wang , Yuheng Shan , Heyan Chai , Jiayi Li , Zixian Ma , Xinrui Zhang , Yu Li

The rapid growth of biomedical knowledge has outpaced our ability to efficiently extract insights and generate novel hypotheses. Large language models (LLMs) have emerged as a promising tool to revolutionize knowledge interaction and…

Computation and Language · Computer Science 2024-07-16 Biqing Qi , Kaiyan Zhang , Kai Tian , Haoxiang Li , Zhang-Ren Chen , Sihang Zeng , Ermo Hua , Hu Jinfang , Bowen Zhou

Large language models (LLMs) have recently demonstrated remarkable capabilities to comprehend human intentions, engage in reasoning, and design planning-like behavior. To further unleash the power of LLMs to accomplish complex tasks, there…

Large Language Models (LLMs) are transforming artificial intelligence, enabling autonomous agents to perform diverse tasks across various domains. These agents, proficient in human-like text comprehension and generation, have the potential…

Artificial Intelligence · Computer Science 2024-04-10 Saikat Barua

Finetuning a Large Language Model (LLM) is crucial for generating results towards specific objectives. This research delves into the realm of drug optimization and introduce a novel reinforcement learning algorithm to finetune a drug…

Machine Learning · Computer Science 2025-02-12 Xuefeng Liu , Songhao Jiang , Siyu Chen , Zhuoran Yang , Yuxin Chen , Ian Foster , Rick Stevens

Large language models (LLMs), despite their remarkable progress across various general domains, encounter significant barriers in medicine and healthcare. This field faces unique challenges such as domain-specific terminologies and…

Computation and Language · Computer Science 2024-06-06 Xiangru Tang , Anni Zou , Zhuosheng Zhang , Ziming Li , Yilun Zhao , Xingyao Zhang , Arman Cohan , Mark Gerstein

AI tasks encompass a wide range of domains and fields. While numerous AI models have been designed for specific tasks and applications, they often require considerable human efforts in finding the right model architecture, optimization…

Computation and Language · Computer Science 2023-05-05 Shujian Zhang , Chengyue Gong , Lemeng Wu , Xingchao Liu , Mingyuan Zhou

While generative models have recently become ubiquitous in many scientific areas, less attention has been paid to their evaluation. For molecular generative models, the state-of-the-art examines their output in isolation or in relation to…

In recent years, we have witnessed significant progress in emerging deep learning models, particularly Large Language Models (LLMs) and Vision-Language Models (VLMs). These models have demonstrated promising results, indicating a new era of…

Computer Vision and Pattern Recognition · Computer Science 2025-03-18 Paola Natalia Cañas , Marcos Nieto , Oihana Otaegui , Igor Rodríguez

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

Recent advances in Generative Artificial Intelligence, particularly Large Language Models (LLMs), have stimulated growing interest in automating or assisting Business Process Modeling tasks using natural language. Several approaches have…

Software Engineering · Computer Science 2026-04-16 João Bettencourt , Sérgio Guerreiro

Nuclear waste management requires rigorous regulatory compliance assessment, demanding advanced decision-support systems capable of addressing complex legal, environmental, and safety considerations. This paper presents a multi-agent…

Multiagent Systems · Computer Science 2025-05-29 Dongjune Chang , Sola Kim , Young Soo Park

The rapid evolution of artificial intelligence in drug discovery encounters challenges with generalization and extensive training, yet Large Language Models (LLMs) offer promise in reshaping interactions with complex molecular data. Our…

Biomolecules · Quantitative Biology 2024-12-20 He Cao , Zijing Liu , Xingyu Lu , Yuan Yao , Yu Li

Large language models(LLMS)have shown excellent text generation capabilities, capable of generating fluent human-like responses for many downstream tasks. However, applying large language models to real-world critical tasks remains…

Computation and Language · Computer Science 2023-07-21 Le Xiao , Xin Shan

Using tools by Large Language Models (LLMs) is a promising avenue to extend their reach beyond language or conversational settings. The number of tools can scale to thousands as they enable accessing sensory information, fetching updated…

Information Retrieval · Computer Science 2024-12-06 Mohammad Kachuee , Sarthak Ahuja , Vaibhav Kumar , Puyang Xu , Xiaohu Liu

Fragment-based drug discovery is an effective strategy for discovering drug candidates in the vast chemical space, and has been widely employed in molecular generative models. However, many existing fragment extraction methods in such…

Machine Learning · Computer Science 2024-05-31 Seul Lee , Seanie Lee , Kenji Kawaguchi , Sung Ju Hwang

Machine Learning (ML) and Deep Learning (DL) innovations are being introduced at such a rapid pace that researchers are hard-pressed to analyze and study them. The complicated procedures for evaluating innovations, along with the lack of…

Distributed, Parallel, and Cluster Computing · Computer Science 2020-02-20 Abdul Dakkak , Cheng Li , Jinjun Xiong , Wen-mei Hwu

Agentic systems for drug discovery have demonstrated autonomous synthesis planning, literature mining, and molecular design. We ask how well they generalize. Evaluating six frameworks against 15 task classes drawn from peptide therapeutics,…

Quantitative Methods · Quantitative Biology 2026-02-12 Edward Wijaya

Automated Machine Learning (AutoML) is a rapidly growing set of technologies that automate the model development pipeline by searching model space and generating candidate models. A critical, final step of AutoML is human selection of a…

Human-Computer Interaction · Computer Science 2021-04-12 Shweta Narkar , Yunfeng Zhang , Q. Vera Liao , Dakuo Wang , Justin D Weisz
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