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The modeling of bio-molecular system across molecular scales remains a central challenge in scientific research. Large language models (LLMs) are increasingly applied to bio-molecular discovery, yet systematic evaluation across multi-scale…

Machine Learning · Computer Science 2026-04-07 Yaxin Xu , Yue Zhou , Tianyu Zhao , Fengwei An , Zhixiang Ren

Lead optimization in drug discovery requires improving therapeutic properties while ensuring that molecular modifications correspond to feasible synthetic routes. Existing approaches either prioritize property scores without enforcing…

Machine Learning · Computer Science 2026-05-04 Tao Li , Kaiyuan Hou , Tuan Vinh , Monika Raj , Zhichun Guo , Carl Yang

Accurate molecular property prediction is a critical challenge with wide-ranging applications in chemistry, materials science, and drug discovery. Molecular representation methods, including fingerprints and graph neural networks (GNNs),…

Machine Learning · Computer Science 2025-08-13 Jiaxin Ju , Yizhen Zheng , Huan Yee Koh , Can Wang , Shirui Pan

Large language models (LLMs) are initially pretrained for broad capabilities and then finetuned with instruction-following datasets to improve their performance in interacting with humans. Despite advances in finetuning, a standardized…

Computation and Language · Computer Science 2024-07-30 Yihan Cao , Yanbin Kang , Chi Wang , Lichao Sun

Visual instruction tuning has recently shown encouraging progress with open-source large multimodal models (LMM) such as LLaVA and MiniGPT-4. However, most existing studies of open-source LMM are performed using models with 13B parameters…

Computer Vision and Pattern Recognition · Computer Science 2023-09-19 Yadong Lu , Chunyuan Li , Haotian Liu , Jianwei Yang , Jianfeng Gao , Yelong Shen

Large Language Models (LLMs), particularly those similar to ChatGPT, have significantly influenced the field of Natural Language Processing (NLP). While these models excel in general language tasks, their performance in domain-specific…

Computation and Language · Computer Science 2024-01-02 Omid Rohanian , Mohammadmahdi Nouriborji , David A. Clifton

The efficacy of large language models (LLMs) is heavily dependent on the quality of the underlying data, particularly within specialized domains. A common challenge when fine-tuning LLMs for domain-specific applications is the potential…

Computation and Language · Computer Science 2024-03-15 Jianwei Sun , Chaoyang Mei , Linlin Wei , Kaiyu Zheng , Na Liu , Ming Cui , Tianyi Li

Code LLMs have shown promising results with converting tasks in natural language to programs that can be executed by service robots. We are interested in finetuning small, specialized LLMs for this purpose, but collecting datasets of…

Computation and Language · Computer Science 2025-10-13 Zichao Hu , Junyi Jessy Li , Arjun Guha , Joydeep Biswas

Machine learning catalyzes a revolution in chemical and biological science. However, its efficacy heavily depends on the availability of labeled data, and annotating biochemical data is extremely laborious. To surmount this data sparsity…

Machine Learning · Computer Science 2026-01-08 Fang Wu , Shuting Jin , Siyuan Li , Stan Z. Li

Autonomous tuning of particle accelerators is an active and challenging field of research with the goal of enabling novel accelerator technologies cutting-edge high-impact applications, such as physics discovery, cancer research and…

Computation and Language · Computer Science 2024-05-16 Jan Kaiser , Annika Eichler , Anne Lauscher

Multi-modal Large Language Models (MLLMs) integrate visual and linguistic reasoning to address complex tasks such as image captioning and visual question answering. While MLLMs demonstrate remarkable versatility, MLLMs appears limited…

Computation and Language · Computer Science 2025-03-07 Wenke Huang , Jian Liang , Xianda Guo , Yiyang Fang , Guancheng Wan , Xuankun Rong , Chi Wen , Zekun Shi , Qingyun Li , Didi Zhu , Yanbiao Ma , Ke Liang , Bin Yang , He Li , Jiawei Shao , Mang Ye , Bo Du

Large language models (LLMs) have demonstrated remarkable capabilities across a wide range of tasks. Typically, LLMs are first pre-trained on large corpora and subsequently fine-tuned on task-specific datasets. However, during fine-tuning,…

Machine Learning · Computer Science 2025-10-21 Yupeng Chen , Senmiao Wang , Yushun Zhang , Zhihang Lin , Haozhe Zhang , Weijian Sun , Tian Ding , Ruoyu Sun

The advancement of Large Language Models (LLMs) for domain applications in fields such as materials science and engineering depends on the development of fine-tuning strategies that adapt models for specialized, technical capabilities. In…

Computation and Language · Computer Science 2024-09-06 Wei Lu , Rachel K. Luu , Markus J. Buehler

Molecule generation and optimization is a fundamental task in chemical domain. The rapid development of intelligent tools, especially large language models (LLMs) with powerful knowledge reserves and interactive capabilities, has provided…

Machine Learning · Computer Science 2026-02-10 Haoran Liu , Zheni Zeng , Yukun Yan , Yuxuan Chen , Yunduo Xiao

Large Language Models (LLMs) have demonstrated exceptional proficiency in text understanding and embedding tasks. However, their potential in multimodal representation, particularly for item-to-item (I2I) recommendations, remains…

Information Retrieval · Computer Science 2025-01-22 Chao Zhang , Haoxin Zhang , Shiwei Wu , Di Wu , Tong Xu , Xiangyu Zhao , Yan Gao , Yao Hu , Enhong Chen

The advent of large language models (LLMs) has significantly advanced various fields, including natural language processing and automated dialogue systems. This paper explores the application of LLMs in psychological counseling, addressing…

Computation and Language · Computer Science 2024-06-21 Wenjie Li , Tianyu Sun , Kun Qian , Wenhong Wang

We address the task of controlled generation of small molecules, which entails finding novel molecules with desired properties under certain constraints (e.g., similarity to a reference molecule). Here we introduce MolMIM, a probabilistic…

Machine Learning · Computer Science 2023-03-31 Danny Reidenbach , Micha Livne , Rajesh K. Ilango , Michelle Gill , Johnny Israeli

Generating a novel and optimized molecule with desired chemical properties is an essential part of the drug discovery process. Failure to meet one of the required properties can frequently lead to failure in a clinical test which is costly.…

Machine Learning · Computer Science 2020-10-28 Bonggun Shin , Sungsoo Park , JinYeong Bak , Joyce C. Ho

Large language models (LLMs) excel in general tasks but struggle with domain-specific ones, requiring fine-tuning with specific data. With many open-source LLMs available, selecting the best model for fine-tuning downstream tasks is…

Computation and Language · Computer Science 2025-09-05 Wei Huang , Huang Wei , Yinggui Wang

Computational cognitive models, which formalize theories of cognition, enable researchers to quantify cognitive processes and arbitrate between competing theories by fitting models to behavioral data. Traditionally, these models are…

Machine Learning · Computer Science 2025-11-10 Milena Rmus , Akshay K. Jagadish , Marvin Mathony , Tobias Ludwig , Eric Schulz
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