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Large Language Models (LLMs) are traditionally viewed as black-box algorithms, therefore reducing trustworthiness and obscuring potential approaches to increasing performance on downstream tasks. In this work, we apply an effective LLM…

Computation and Language · Computer Science 2025-07-10 Shun Wang , Tyler Loakman , Youbo Lei , Yi Liu , Bohao Yang , Yuting Zhao , Dong Yang , Chenghua Lin

Large language models (LLMs) encode a diverse range of linguistic features within their latent representations, which can be harnessed to steer their output toward specific target characteristics. In this paper, we modify the internal…

Computation and Language · Computer Science 2025-02-27 Sumanta Bhattacharyya , Pedram Rooshenas

Large Language Models (LLMs) have achieved strong complex reasoning capabilities through Chain-of-Thought (CoT) reasoning. However, their reasoning patterns remain too complicated to analyze. While Sparse Autoencoders (SAEs) have emerged as…

Machine Learning · Computer Science 2026-03-04 Xuan Yang , Jiayu Liu , Yuhang Lai , Hao Xu , Zhenya Huang , Ning Miao

The success of language models, especially transformer-based architectures, has trickled into other domains giving rise to "scientific language models" that operate on small molecules, proteins or polymers. In chemistry, language models…

Chemical Physics · Physics 2024-10-22 Nikita Janakarajan , Tim Erdmann , Sarath Swaminathan , Teodoro Laino , Jannis Born

Reliable molecular property prediction is essential for various scientific endeavors and industrial applications, such as drug discovery. However, the data scarcity, combined with the highly non-linear causal relationships between…

Machine Learning · Computer Science 2025-01-14 Yue Wan , Jialu Wu , Tingjun Hou , Chang-Yu Hsieh , Xiaowei Jia

Recent work in Mechanistic Interpretability (MI) has enabled the identification and intervention of internal features in Large Language Models (LLMs). However, a persistent challenge lies in linking such internal features to the reliable…

Computation and Language · Computer Science 2026-04-08 Ruikang Zhang , Shuo Wang , Qi Su

Sparse autoencoders (SAEs) have recently emerged as a powerful tool for interpreting the internal representations of large language models (LLMs), revealing latent latent features with semantical meaning. This interpretability has also…

Other Quantitative Biology · Quantitative Biology 2025-07-11 Haoxiang Guan , Jiyan He , Jie Zhang

This paper presents a study on the integration of domain-specific knowledge in prompt engineering to enhance the performance of large language models (LLMs) in scientific domains. A benchmark dataset is curated to encapsulate the intricate…

Computation and Language · Computer Science 2024-04-24 Hongxuan Liu , Haoyu Yin , Zhiyao Luo , Xiaonan Wang

Understanding the multilingual mechanisms of large language models (LLMs) provides insight into how they process different languages, yet this remains challenging. Existing studies often focus on individual neurons, but their polysemantic…

Chemical language models (CLMs) are increasingly used for molecular design and property prediction. Because these models learn from textual encodings of molecules, differences in how such encodings are generated may affect their behavior.…

Quantitative Methods · Quantitative Biology 2026-02-13 Yosuke Kikuchi , Yasuhiro Yoshikai , Shumpei Nemoto , Ayako Furuhama , Takashi Yamada , Hiroyuki Kusuhara , Tadahaya Mizuno

Understanding the decision-making processes of neural networks is a central goal of mechanistic interpretability. In the context of Large Language Models (LLMs), this involves uncovering the underlying mechanisms and identifying the roles…

Computation and Language · Computer Science 2026-04-21 Nils Feldhus , Laura Kopf

Chemical large language models (LLMs) predominantly rely on explicit Chain-of-Thought (CoT) in natural language to perform complex reasoning. However, chemical reasoning is inherently continuous and structural, and forcing it into discrete…

Models based on machine learning can enable accurate and fast molecular property predictions, which is of interest in drug discovery and material design. Various supervised machine learning models have demonstrated promising performance,…

Machine Learning · Computer Science 2022-12-15 Jerret Ross , Brian Belgodere , Vijil Chenthamarakshan , Inkit Padhi , Youssef Mroueh , Payel Das

Chemical representation learning has gained increasing interest due to the limited availability of supervised data in fields such as drug and materials design. This interest particularly extends to chemical language representation learning,…

Chemical Physics · Physics 2024-08-06 Jun-Hyung Park , Yeachan Kim , Mingyu Lee , Hyuntae Park , SangKeun Lee

Sparse Autoencoders (SAEs) provide potentials for uncovering structured, human-interpretable representations in Large Language Models (LLMs), making them a crucial tool for transparent and controllable AI systems. We systematically analyze…

Machine Learning · Computer Science 2026-02-03 Jack Gallifant , Shan Chen , Kuleen Sasse , Hugo Aerts , Thomas Hartvigsen , Danielle S. Bitterman

Large Language Models (LLMs) encode factual knowledge within hidden parametric spaces that are difficult to inspect or control. While Sparse Autoencoders (SAEs) can decompose hidden activations into more fine-grained, interpretable…

Machine Learning · Computer Science 2026-01-14 Minglai Yang , Xinyu Guo , Zhengliang Shi , Jinhe Bi , Steven Bethard , Mihai Surdeanu , Liangming Pan

Recent advancements in large language models (LLMs) have demonstrated strong potential for enabling domain-specific intelligence. In this work, we present our vision for building an AI-powered chemical brain, which frames chemical…

Artificial Intelligence · Computer Science 2026-01-12 Weichen Dai , Yezeng Chen , Zijie Dai , Yubo Liu , Zhijie Huang , Yixuan Pan , Baiyang Song , Chengli Zhong , Xinhe Li , Zeyu Wang , Zhuoying Feng , Yi Zhou

The application of large language models (LLMs) to chemistry is frequently hampered by a "tokenization bottleneck", where tokenizers tuned on general-domain text tend to fragment chemical representations such as SMILES into semantically…

Computation and Language · Computer Science 2025-11-19 Prathamesh Kalamkar , Ned Letcher , Meissane Chami , Sahger Lad , Shayan Mohanty , Prasanna Pendse

Artificial Text Detection (ATD) is becoming increasingly important with the rise of advanced Large Language Models (LLMs). Despite numerous efforts, no single algorithm performs consistently well across different types of unseen text or…