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Large Language Models (LLMs) have demonstrated impressive capability in many natural language tasks. However, the auto-regressive generation process makes LLMs prone to produce errors, hallucinations and inconsistent statements when…

Artificial Intelligence · Computer Science 2024-07-23 Chaojie Wang , Yanchen Deng , Zhiyi Lyu , Liang Zeng , Jujie He , Shuicheng Yan , Bo An

Designing proteins that satisfy natural language functional requirements is a central goal in protein engineering. A straightforward baseline is to fine-tune generic instruction-tuned LLMs as direct text-to-sequence generators, but this is…

Quantitative Methods · Quantitative Biology 2026-04-21 Yutang Ge , Guojiang Zhao , Sihang Li , Zheng Cheng , Zifeng Zhao , Hanchen Xia , Guolin Ke , Linfeng Zhang , Zhifeng Gao , Yuguang Wang

Retrosynthesis -- the process of identifying a set of reactants to synthesize a target molecule -- is of vital importance to material design and drug discovery. Existing machine learning approaches based on language models and graph neural…

Chemical Physics · Physics 2021-12-10 Ruoxi Sun , Hanjun Dai , Li Li , Steven Kearnes , Bo Dai

Large language models (LLMs) are becoming increasingly applied beyond natural language processing, demonstrating strong capabilities in complex scientific tasks that traditionally require human expertise. This progress has extended into…

Materials Science · Physics 2026-02-26 Dong Hyeon Mok , Seoin Back , Victor Fung , Guoxiang Hu

Retrosynthesis, of which the goal is to find a set of reactants for synthesizing a target product, is an emerging research area of deep learning. While the existing approaches have shown promising results, they currently lack the ability to…

Machine Learning · Computer Science 2021-06-04 Hankook Lee , Sungsoo Ahn , Seung-Woo Seo , You Young Song , Eunho Yang , Sung-Ju Hwang , Jinwoo Shin

Retrosynthesis, which aims to identify viable synthetic pathways for target molecules by decomposing them into simpler precursors, is often treated as a search problem. However, its complexity arises from multi-branched tree-structured…

Artificial Intelligence · Computer Science 2025-11-25 Chengyang Tian , Yuhang Chang , Yangpeng Zhang , Yang Liu

Large language models (LLMs) with billions of parameters exhibit in-context learning abilities, enabling few-shot learning on tasks that the model was not specifically trained for. Traditional models achieve breakthrough performance on…

Artificial Intelligence · Computer Science 2025-11-04 Aske Plaat , Annie Wong , Suzan Verberne , Joost Broekens , Niki van Stein , Thomas Back

Retrosynthesis is one of the fundamental problems in organic chemistry. The task is to identify reactants that can be used to synthesize a specified product molecule. Recently, computer-aided retrosynthesis is finding renewed interest from…

Machine Learning · Computer Science 2020-01-07 Hanjun Dai , Chengtao Li , Connor W. Coley , Bo Dai , Le Song

Despite their ability to understand chemical knowledge, large language models (LLMs) remain limited in their capacity to propose novel molecules with desired functions (e.g., drug-like properties). In addition, the molecules that LLMs…

Recent advancements in large language models (LLMs) have demonstrated impressive performance in molecular generation, which offers potential to accelerate drug discovery. However, the current LLMs overlook a critical requirement for drug…

Machine Learning · Computer Science 2025-02-18 Hyosoon Jang , Yunhui Jang , Jaehyung Kim , Sungsoo Ahn

Large Language Models (LLMs) have made great strides in areas such as language processing and computer vision. Despite the emergence of diverse techniques to improve few-shot learning capacity, current LLMs fall short in handling the…

Biomolecules · Quantitative Biology 2024-05-14 Xianggen Liu , Yan Guo , Haoran Li , Jin Liu , Shudong Huang , Bowen Ke , Jiancheng Lv

Multimodal Large Language Models (MLLMs) have seen growing adoption across various scientific disciplines. These advancements encourage the investigation of molecule-text modeling within synthetic chemistry, a field dedicated to designing…

Machine Learning · Computer Science 2024-06-21 He Cao , Yanjun Shao , Zhiyuan Liu , Zijing Liu , Xiangru Tang , Yuan Yao , Yu Li

Long-sequence decision-making, which is usually addressed through reinforcement learning (RL), is a critical component for optimizing strategic operations in dynamic environments, such as real-time bidding in computational advertising. The…

Artificial Intelligence · Computer Science 2026-01-16 Xiaowei Lv , Zhilin Zhang , Yijun Li , Yusen Huo , Siyuan Ju , Xuyan Li , Chunxiang Hong , Tianyu Wang , Yongcai Wang , Peng Sun , Chuan Yu , Jian Xu , Bo Zheng

Large language models (LLMs) have achieved impressive performance in code generation recently, offering programmers revolutionary assistance in software development. However, due to the auto-regressive nature of LLMs, they are susceptible…

Software Engineering · Computer Science 2025-03-25 Xue Jiang , Yihong Dong , Yongding Tao , Huanyu Liu , Zhi Jin , Wenpin Jiao , Ge Li

Understanding large-scale, complex software systems is a major challenge for developers, who spend a significant portion of their time on program comprehension. Traditional tools such as static visualizations and reverse engineering…

Software Engineering · Computer Science 2025-08-11 Yoseph Berhanu Alebachew

While Large Language Models (LLMs) have achieved remarkable success in code generation, they often struggle with the deep, long-horizon reasoning required for complex software engineering. We attribute this limitation to the nature of…

In recent years, Large Language Models (LLMs) have achieved significant success in natural language processing (NLP) and various interdisciplinary areas. However, applying LLMs to chemistry is a complex task that requires specialized domain…

Machine Learning · Computer Science 2024-02-05 Chang Liao , Yemin Yu , Yu Mei , Ying Wei

Large Language Models (LLMs) have shown remarkable potential in scientific domains like retrosynthesis; yet, they often lack the fine-grained control necessary to navigate complex problem spaces without error. A critical challenge is…

Quantitative Methods · Quantitative Biology 2026-02-17 Shreyas Vinaya Sathyanarayana , Shah Rahil Kirankumar , Sharanabasava D. Hiremath , Bharath Ramsundar

Generative machine learning models for exploring chemical space have shown immense promise, but many molecules they generate are too difficult to synthesize, making them impractical for further investigation or development. In this work, we…

Retrosynthesis analysis is a critical task in organic chemistry central to many important industries. Previously, various machine learning approaches have achieved promising results on this task by representing output molecules as strings…

Quantitative Methods · Quantitative Biology 2022-09-20 Lei Fang , Junren Li , Ming Zhao , Li Tan , Jian-Guang Lou