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Related papers: SMI-Editor: Edit-based SMILES Language Model with …

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Molecules are graphs, but large language models~(LLMs) are usually asked to reason about them through linear strings. The most popular molecular representation, SMILES, compresses atoms, bonds, branches and rings into a compact sequence in…

Biomolecules · Quantitative Biology 2026-05-19 Zhiyuan Yan , Chen Liu , Boxuan Zhao , Kaiqing Lin , Jixiang Zhao , Yimi Wang , Liuzhenghao Lv , Hao Li , Shanzhuo Zhang , Li Yuan , Fanyang Mo

In text recognition, self-supervised pre-training emerges as a good solution to reduce dependence on expansive annotated real data. Previous studies primarily focus on local visual representation by leveraging mask image modeling or…

Computer Vision and Pattern Recognition · Computer Science 2024-05-14 Zuan Gao , Yuxin Wang , Yadong Qu , Boqiang Zhang , Zixiao Wang , Jianjun Xu , Hongtao Xie

Large language models (LLMs) acquire knowledge during pre-training, but over time, this knowledge may become incorrect or outdated, necessitating updates after training. Knowledge editing techniques address this issue without the need for…

Computation and Language · Computer Science 2024-10-16 Yuchen Cai , Ding Cao

Molecular property prediction has gained significant attention due to its transformative potential in multiple scientific disciplines. Conventionally, a molecule graph can be represented either as a graph-structured data or a SMILES text.…

Machine Learning · Computer Science 2023-07-17 Chen Qian , Huayi Tang , Zhirui Yang , Hong Liang , Yong Liu

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

Pre-trained language models (PrLMs) have demonstrated superior performance due to their strong ability to learn universal language representations from self-supervised pre-training. However, even with the help of the powerful PrLMs, it is…

Computation and Language · Computer Science 2021-05-25 Zhuosheng Zhang , Hai Zhao

Molecular property prediction is an increasingly critical task within drug discovery and development. Typically, neural networks can learn molecular properties using graph-based, language-based or feature-based methods. Recent advances in…

Machine Learning · Computer Science 2025-07-31 Philip Spence , Brooks Paige , Anne Osbourn

Many self-supervised speech models (S3Ms) have been introduced over the last few years, improving performance and data efficiency on various speech tasks. However, these empirical successes alone do not give a complete picture of what is…

Computation and Language · Computer Science 2024-02-01 Ankita Pasad , Chung-Ming Chien , Shane Settle , Karen Livescu

Chemical reaction prediction, involving forward synthesis and retrosynthesis prediction, is a fundamental problem in organic synthesis. A popular computational paradigm formulates synthesis prediction as a sequence-to-sequence translation…

Machine Learning · Computer Science 2022-08-15 Zipeng Zhong , Jie Song , Zunlei Feng , Tiantao Liu , Lingxiang Jia , Shaolun Yao , Min Wu , Tingjun Hou , Mingli Song

Molecular representation learning is fundamental for many drug related applications. Most existing molecular pre-training models are limited in using single molecular modality, either SMILES or graph representation. To effectively leverage…

Machine Learning · Computer Science 2024-11-05 Shikun Feng , Lixin Yang , Yanwen Huang , Yuyan Ni , Weiying Ma , Yanyan Lan

Instruction-based image editing has garnered significant attention due to its direct interaction with users. However, real-world user instructions are immensely diverse, and existing methods often fail to generalize effectively to…

Computer Vision and Pattern Recognition · Computer Science 2025-09-17 Qifei Jia , Yu Liu , Yajie Chai , Xintong Yao , Qiming Lu , Yasen Zhang , Runyu Shi , Ying Huang , Guoquan Zhang

Recently, large language models (LLMs) have demonstrated impressive results but still suffer from hallucinations. Model editing has been proposed to correct factual inaccuracies in LLMs. A challenging case is sequential model editing (SME),…

Computation and Language · Computer Science 2025-06-24 Taolin Zhang , Haidong Kang , Dongyang Li , Qizhou Chen , Chengyu Wang Xiaofeng He , Richang Hong

Neural language models (LMs) have been extensively trained on vast corpora to store factual knowledge about various aspects of the world described in texts. Current technologies typically employ knowledge editing methods or specific prompts…

Computation and Language · Computer Science 2024-05-14 Yuchen Cai , Ding Cao , Rongxi Guo , Yaqin Wen , Guiquan Liu , Enhong Chen

Large Language Models (LLMs) power numerous AI applications, yet updating their knowledge remains costly. Model editing provides a lightweight alternative through targeted parameter modifications, with meta-learning-based model editing…

Computation and Language · Computer Science 2026-01-30 Xiaopeng Li , Shasha Li , Xi Wang , Shezheng Song , Bin Ji , Shangwen Wang , Jun Ma , Xiaodong Liu , Mina Liu , Jie Yu

SMILES is a linear representation of chemical structures which encodes the connection table, and the stereochemistry of a molecule as a line of text with a grammar structure denoting atoms, bonds, rings and chains, and this information can…

Machine Learning · Computer Science 2018-12-03 Arindam Paul , Dipendra Jha , Reda Al-Bahrani , Wei-keng Liao , Alok Choudhary , Ankit Agrawal

In recent years, with the maturation of large language model (LLM) technology and the emergence of high-quality programming code datasets, researchers have become increasingly confident in addressing the challenges of program synthesis…

Software Engineering · Computer Science 2024-10-11 Zhanyue Qin , Haochuan Wang , Zecheng Wang , Deyuan Liu , Cunhang Fan , Zhao Lv , Zhiying Tu , Dianhui Chu , Dianbo Sui

Transformer-based pretrained language models (LMs) are ubiquitous across natural language understanding, but cannot be applied to long sequences such as stories, scientific articles and long documents, due to their quadratic complexity.…

Computation and Language · Computer Science 2022-12-29 Maor Ivgi , Uri Shaham , Jonathan Berant

In this paper, we focus on editing Multimodal Large Language Models (MLLMs). Compared to editing single-modal LLMs, multimodal model editing is more challenging, which demands a higher level of scrutiny and careful consideration in the…

Computation and Language · Computer Science 2024-04-19 Siyuan Cheng , Bozhong Tian , Qingbin Liu , Xi Chen , Yongheng Wang , Huajun Chen , Ningyu Zhang

The development of large language models and multi-modal models has enabled the appealing idea of generating novel molecules from text descriptions. Generative modeling would shift the paradigm from relying on large-scale chemical screening…

Machine Learning · Computer Science 2025-08-25 Yifan Deng , Spencer S. Ericksen , Anthony Gitter

Recent advances in multimodal large language models (LLMs) have enabled unified reasoning across images, audio, and video, but extending such capability to brain imaging remains largely unexplored. Bridging this gap is essential to link…

Computation and Language · Computer Science 2026-05-15 Yuxiang Wei , Yanteng Zhang , Xi Xiao , Chengxuan Qian , Tianyang Wang , Vince D. Calhoun