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Recently, the impressive performance of large language models (LLMs) on a wide range of tasks has attracted an increasing number of attempts to apply LLMs in drug discovery. However, molecule optimization, a critical task in the drug…

Quantitative Methods · Quantitative Biology 2024-01-22 Geyan Ye , Xibao Cai , Houtim Lai , Xing Wang , Junhong Huang , Longyue Wang , Wei Liu , Xiangxiang Zeng

Recent advancements in Large Language Models (LLMs) have paved the way for Vision Large Language Models (VLLMs) capable of performing a wide range of visual understanding tasks. While LLMs have demonstrated impressive performance on…

Computer Vision and Pattern Recognition · Computer Science 2025-09-03 Muhammad Ali , Salman Khan

We present UniDetox, a universally applicable method designed to mitigate toxicity across various large language models (LLMs). Previous detoxification methods are typically model-specific, addressing only individual models or model…

Computation and Language · Computer Science 2025-04-30 Huimin Lu , Masaru Isonuma , Junichiro Mori , Ichiro Sakata

General-purpose large language models (LLMs) that rely on in-context learning do not reliably deliver the scientific understanding and performance required for drug discovery tasks. Simply increasing model size or introducing reasoning…

Warning: this paper includes model outputs showing offensive content. Recent large-scale Visual-Language Generative Models (VLGMs) have achieved unprecedented improvement in multimodal image/text generation. However, these models might also…

Computation and Language · Computer Science 2023-12-20 Xinpeng Wang , Xiaoyuan Yi , Han Jiang , Shanlin Zhou , Zhihua Wei , Xing Xie

Language model detoxification aims to minimize the risk of generating offensive or harmful content in pretrained language models (PLMs) for safer deployment. Existing methods can be roughly categorized as finetuning-based and…

Computation and Language · Computer Science 2023-10-17 Chak Tou Leong , Yi Cheng , Jiashuo Wang , Jian Wang , Wenjie Li

Despite deep learning's success in chemistry, its impact is hindered by a lack of interpretability and an inability to resolve activity cliffs, where minor structural nuances trigger drastic property shifts. Current representation learning,…

Machine Learning · Computer Science 2026-03-26 Xiangsen Chen , Ruilong Wu , Yanyan Lan , Ting Ma , Yang Liu

Text detoxification aims to minimize the risk of language models producing toxic content. Existing detoxification methods of directly constraining the model output or further training the model on the non-toxic corpus fail to achieve a…

Computation and Language · Computer Science 2024-10-14 Zecheng Tang , Keyan Zhou , Juntao Li , Yuyang Ding , Pinzheng Wang , Bowen Yan , Rejie Hua , Min Zhang

Designing de-novo molecules with desired property profiles requires efficient exploration of the vast chemical space ranging from $10^{23}$ to $10^{60}$ possible synthesizable candidates. While various deep generative models have been…

Machine Learning · Computer Science 2025-08-25 Kamran Chitsaz , Roshan Balaji , Quentin Fournier , Nirav Pravinbhai Bhatt , Sarath Chandar

With adversarial or otherwise normal prompts, existing large language models (LLM) can be pushed to generate toxic discourses. One way to reduce the risk of LLMs generating undesired discourses is to alter the training of the LLM. This can…

Computation and Language · Computer Science 2023-02-28 Meng Cao , Mehdi Fatemi , Jackie Chi Kit Cheung , Samira Shabanian

Large Language Models (LLMs) drive current AI breakthroughs despite very little being known about their internal representations. In this work, we propose to shed the light on LLMs inner mechanisms through the lens of geometry. In…

Artificial Intelligence · Computer Science 2024-07-12 Randall Balestriero , Romain Cosentino , Sarath Shekkizhar

Large Language Models (LLMs) stand at the forefront of a number of Natural Language Processing (NLP) tasks. Despite the widespread adoption of LLMs in NLP, much of their potential in broader fields remains largely unexplored, and…

Machine Learning · Computer Science 2024-03-11 Zhiqiang Zhong , Kuangyu Zhou , Davide Mottin

The integration of Large Language Models (LLMs) into the drug discovery and development field marks a significant paradigm shift, offering novel methodologies for understanding disease mechanisms, facilitating drug discovery, and optimizing…

Quantitative Methods · Quantitative Biology 2024-09-10 Yizhen Zheng , Huan Yee Koh , Maddie Yang , Li Li , Lauren T. May , Geoffrey I. Webb , Shirui Pan , George Church

Molecule discovery plays a crucial role in various scientific fields, advancing the design of tailored materials and drugs. However, most of the existing methods heavily rely on domain experts, require excessive computational cost, or…

Computation and Language · Computer Science 2024-05-10 Jiatong Li , Yunqing Liu , Wenqi Fan , Xiao-Yong Wei , Hui Liu , Jiliang Tang , Qing Li

Large language models (LLMs) are in the ascendancy for research in drug discovery, offering unprecedented opportunities to reshape drug research by accelerating hypothesis generation, optimizing candidate prioritization, and enabling more…

Machine Learning · Computer Science 2026-04-06 Tianyu Liu , Sihan Jiang , Fan Zhang , Kunyang Sun , Teresa Head-Gordon , Hongyu Zhao

Pre-trained language models (LMs) are shown to easily generate toxic language. In this work, we systematically explore domain-adaptive training to reduce the toxicity of language models. We conduct this study on three dimensions: training…

Computation and Language · Computer Science 2022-10-25 Boxin Wang , Wei Ping , Chaowei Xiao , Peng Xu , Mostofa Patwary , Mohammad Shoeybi , Bo Li , Anima Anandkumar , Bryan Catanzaro

Large Language Models (LLMs) have the potential to accelerate small molecule drug design due to their ability to reason about information from diverse sources and formats. However, their practical utility remains unclear due to the lack of…

Large language models (LM) generate remarkably fluent text and can be efficiently adapted across NLP tasks. Measuring and guaranteeing the quality of generated text in terms of safety is imperative for deploying LMs in the real world; to…

Large Language Models (LLMs) have become integral to Software Engineering (SE), increasingly used in development workflows. However, their widespread adoption raises concerns about the presence and propagation of toxic language - harmful or…

Machine Learning · Computer Science 2026-01-21 Hao Zhuo , Yicheng Yang , Kewen Peng

Precise recognition, editing, and generation of molecules are essential prerequisites for both chemists and AI systems tackling various chemical tasks. We present MolLangBench, a comprehensive benchmark designed to evaluate fundamental…

Computation and Language · Computer Science 2026-03-24 Feiyang Cai , Jiahui Bai , Tao Tang , Guijuan He , Joshua Luo , Tianyu Zhu , Srikanth Pilla , Gang Li , Ling Liu , Feng Luo