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Although large language models (LLMs) have significant potential to advance chemical discovery, current LLMs lack core chemical knowledge, produce unreliable reasoning trajectories, and exhibit suboptimal performance across diverse chemical…

Computational Engineering, Finance, and Science · Computer Science 2025-10-23 Weida Wang , Benteng Chen , Di Zhang , Wanhao Liu , Shuchen Pu , Ben Gao , Jin Zeng , Xiaoyong Wei , Tianshu Yu , Shuzhou Sun , Tianfan Fu , Wanli Ouyang , Lei Bai , Jiatong Li , Zifu Wang , Yuqiang Li , Shufei Zhang

Large reasoning models (LRMs) achieve strong reasoning performance by emitting long chains of thought. Yet, these verbose traces slow down inference and often drift into unnecessary detail, known as the overthinking phenomenon. To better…

Computation and Language · Computer Science 2025-06-10 Ming Li , Zhengyuan Yang , Xiyao Wang , Dianqi Li , Kevin Lin , Tianyi Zhou , Lijuan Wang

Language models (LMs) can perform complex reasoning either end-to-end, with hidden latent state, or compositionally, with transparent intermediate state. Composition offers benefits for interpretability and safety, but may need workflow…

Computation and Language · Computer Science 2023-01-06 Justin Reppert , Ben Rachbach , Charlie George , Luke Stebbing , Jungwon Byun , Maggie Appleton , Andreas Stuhlmüller

While large language models (LLMs) excel in mathematical and code reasoning, we observe they struggle with social reasoning tasks, exhibiting cognitive confusion, logical inconsistencies, and conflation between objective world states and…

Computation and Language · Computer Science 2025-10-14 Jialu Du , Guiyang Hou , Yihui Fu , Chen Wu , Wenqi Zhang , Yongliang Shen , Weiming Lu

Understanding a program's runtime reasoning behavior, meaning how intermediate states and control flows lead to final execution results, is essential for reliable code generation, debugging, and automated reasoning. Although large language…

Software Engineering · Computer Science 2025-12-02 Mohammad Abdollahi , Khandaker Rifah Tasnia , Soumit Kanti Saha , Jinqiu Yang , Song Wang , Hadi Hemmati

The evolution of Large Language Models (LLMs) has catalyzed a paradigm shift from superficial instruction following to rigorous long-horizon reasoning. While Group Relative Policy Optimization (GRPO) has emerged as a pivotal mechanism for…

Artificial Intelligence · Computer Science 2026-01-01 Xuan Xie , Xuan Wang , Wenjie Wang , Shuai Chen , Wei Lin

Large Language Models (LLMs) encounter challenges with the unique syntax of specific domains, such as biomolecules. Existing fine-tuning or modality alignment techniques struggle to bridge the domain knowledge gap and understand complex…

Biomolecules · Quantitative Biology 2024-06-28 Jinzhe Liu , Xiangsheng Huang , Zhuo Chen , Yin Fang

Large language models (LLMs) have shown promise in medical question answering but often struggle with hallucinations and shallow reasoning, particularly in tasks requiring nuanced clinical understanding. Retrieval-augmented generation (RAG)…

Computation and Language · Computer Science 2025-08-25 Ziyu Wang , Elahe Khatibi , Amir M. Rahmani

Recent advances in large language models (LLMs) have made reasoning a central benchmark for evaluating intelligence. While prior surveys focus on efficiency by examining how to shorten reasoning chains or reduce computation, this view…

Artificial Intelligence · Computer Science 2026-04-01 Chao Wu , Baoheng Li , Mingchen Gao , Yu Tian , Zhenyi Wang

Large language models (LLMs) integrated with autonomous agents hold significant potential for advancing scientific discovery through automated reasoning and task execution. However, applying LLM agents to drug discovery is still constrained…

Artificial Intelligence · Computer Science 2025-07-29 Kun Li , Zhennan Wu , Shoupeng Wang , Jia Wu , Shirui Pan , Wenbin Hu

Large language models (LLMs) have recently shown strong progress on scientific reasoning, yet two major bottlenecks remain. First, explicit retrieval fragments reasoning, imposing a hidden "tool tax" of extra tokens and steps. Second,…

Organic reaction mechanisms are the stepwise elementary reactions by which reactants form intermediates and products, and are fundamental to understanding chemical reactivity and designing new molecules and reactions. Although large…

Artificial Intelligence · Computer Science 2026-05-05 Ruiling Xu , Yifan Zhang , Qingyun Wang , Carl Edwards , Heng Ji

Drug discovery is a complex and resource-intensive process, making early prediction of approval outcomes critical for optimizing research investments. While classical machine learning and deep learning methods have shown promise in drug…

While chain-of-thought (CoT) distillation from advanced large language models (LLMs) has proven effective in general reasoning tasks, it struggles in scientific domains where even advanced models often produce incorrect or superficial…

Computation and Language · Computer Science 2025-10-17 Kehua Feng , Keyan Ding , Zhihui Zhu , Lei Liang , Qiang Zhang , Huajun Chen

Large language models (LLMs) have achieved strong performance on medical exam-style tasks, motivating growing interest in their deployment in real-world clinical settings. However, clinical decision-making is inherently safety-critical,…

Computation and Language · Computer Science 2026-04-13 Xiaohan Ren , Chenxiao Fan , Wenyin Ma , Hongliang He , Chongming Gao , Xiaoyan Zhao , Fuli Feng

Scientific problem solving poses unique challenges for LLMs, requiring both deep domain knowledge and the ability to apply such knowledge through complex reasoning. While automated scientific reasoners hold great promise for assisting human…

Computation and Language · Computer Science 2026-05-29 Alan Li , Yixin Liu , Arpan Sarkar , Doug Downey , Arman Cohan

Acute poly-substance intoxication requires rapid, life-saving decisions under substantial uncertainty, as clinicians must rely on incomplete ingestion details and nonspecific symptoms. Effective diagnostic reasoning in this chaotic…

Computation and Language · Computer Science 2026-04-01 Nico Oberländer , David Bani-Harouni , Tobias Zellner , Nassir Navab , Florian Eyer , Matthias Keicher

Large language models (LLMs) have exhibited extraordinary performance in a variety of tasks while it remains challenging for them to solve complex multi-step tasks as agents. In practice, agents sensitive to the outcome of certain key steps…

Artificial Intelligence · Computer Science 2025-05-28 Zilong Wang , Jingfeng Yang , Sreyashi Nag , Samarth Varshney , Xianfeng Tang , Haoming Jiang , Jingbo Shang , Sheikh Muhammad Sarwar

Inference-time scaling has attracted much attention which significantly enhance the performance of Large Language Models (LLMs) in complex reasoning tasks by increasing the length of Chain-of-Thought. These longer intermediate reasoning…

Computation and Language · Computer Science 2025-05-21 Hongru Wang , Deng Cai , Wanjun Zhong , Shijue Huang , Jeff Z. Pan , Zeming Liu , Kam-Fai Wong

This research explores the integration of large language models (LLMs) into scientific data assimilation, focusing on combustion science as a case study. Leveraging foundational models integrated with Retrieval-Augmented Generation (RAG)…

Artificial Intelligence · Computer Science 2024-09-12 Vansh Sharma , Venkat Raman