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Geometric representation-conditioned molecule generation provides an effective paradigm that decouples molecule representation modeling from structure generation. By decoupling molecule generation into two stages-first generating a…

Machine Learning · Computer Science 2026-05-11 Shaoheng Yan , Zian Li , Cai Zhou , Qiaojing Huang , Kai Liu , Muhan Zhang

Computer-Aided Design (CAD) is a foundational component of industrial prototyping, where models are defined not by raw coordinates but by construction sequences such as sketches and extrusions. This sequential structure enables both…

Machine Learning · Computer Science 2026-03-05 Ruiyu Wang , Shizhao Sun , Weijian Ma , Jiang Bian

Despite Multi-modal Large Language Models (MM-LLMs) have made exciting strides recently, they are still struggling to efficiently model the interactions among multi-modal inputs and the generation in non-textual modalities. In this work, we…

Computation and Language · Computer Science 2024-01-05 Zhen Yang , Yingxue Zhang , Fandong Meng , Jie Zhou

Efficient design and discovery of target-driven molecules is a critical step in facilitating lead optimization in drug discovery. Current approaches to develop molecules for a target protein are intuition-driven, hampered by slow iterative…

Machine Learning · Computer Science 2022-05-24 Andrew D. McNaughton , Mridula S. Bontha , Carter R. Knutson , Jenna A. Pope , Neeraj Kumar

Large Audio Language Models (LALMs) demonstrate impressive performance across diverse tasks, ranging from speech recognition to general audio understanding. However, their scalability is limited by the quadratic complexity of attention and…

Audio and Speech Processing · Electrical Eng. & Systems 2025-11-27 Saurabhchand Bhati , Samuel Thomas , Hilde Kuehne , Rogerio Feris , James Glass

Large language models (LLMs) process and predict sequences containing text to answer questions, and address tasks including document summarization, providing recommendations, writing software and solving quantitative problems. We provide a…

Numerical Analysis · Mathematics 2026-02-02 Ricardo Baptista , Andrew Stuart , Son Tran

Large language models (LLMs) have shown strong empirical performance across pharmacology and drug discovery tasks, yet the internal mechanisms by which they encode pharmacological knowledge remain poorly understood. In this work, we…

Computation and Language · Computer Science 2026-03-05 Basil Hasan Khwaja , Dylan Chen , Guntas Toor , Anastasiya Kuznetsova

Masked graph modeling excels in the self-supervised representation learning of molecular graphs. Scrutinizing previous studies, we can reveal a common scheme consisting of three key components: (1) graph tokenizer, which breaks a molecular…

Machine Learning · Computer Science 2024-01-17 Zhiyuan Liu , Yaorui Shi , An Zhang , Enzhi Zhang , Kenji Kawaguchi , Xiang Wang , Tat-Seng Chua

Conventional Vision-Language Models(VLMs) typically utilize a fixed number of vision tokens, regardless of task complexity. This one-size-fits-all strategy introduces notable inefficiencies: using excessive tokens leads to unnecessary…

Computer Vision and Pattern Recognition · Computer Science 2025-04-07 Junshan Hu , Jialiang Mao , Zhikang Liu , Zhongpu Xia , Peng Jia , Xianpeng Lang

The remarkable success of large language models (LLMs) has motivated researchers to adapt them as universal predictors for various graph-related tasks, with the ultimate goal of developing a graph foundation model that generalizes diverse…

Computation and Language · Computer Science 2026-03-03 Zhongjian Zhang , Xiao Wang , Mengmei Zhang , Jiarui Tan , Chuan Shi

Recent Multimodal Large Language Models (MLLMs) have demonstrated strong performance on vision-language understanding tasks, yet their inference efficiency is often hampered by the large number of visual tokens, particularly in…

Computer Vision and Pattern Recognition · Computer Science 2026-04-21 Jiafei Song , Fengwei Zhou , Jin Qu , Wenjin Jason Li , Tong Wu , Gengjian Xue , Zhikang Zhao , Daomin Wei , Yichao Lu , Bailin Na

We introduce Chunk-Distilled Language Modeling (CD-LM), an approach to text generation that addresses two challenges in current large language models (LLMs): the inefficiency of token-level generation, and the difficulty of adapting to new…

Computation and Language · Computer Science 2025-01-03 Yanhong Li , Karen Livescu , Jiawei Zhou

The remarkable success of Large Language Models (LLMs) has extended to the multimodal domain, achieving outstanding performance in image understanding and generation. Recent efforts to develop unified Multimodal Large Language Models…

Computer Vision and Pattern Recognition · Computer Science 2024-12-13 Hao Li , Changyao Tian , Jie Shao , Xizhou Zhu , Zhaokai Wang , Jinguo Zhu , Wenhan Dou , Xiaogang Wang , Hongsheng Li , Lewei Lu , Jifeng Dai

Previous language model pre-training methods have uniformly applied a next-token prediction loss to all training tokens. Challenging this norm, we posit that "9l training". Our initial analysis examines token-level training dynamics of…

Computation and Language · Computer Science 2025-01-09 Zhenghao Lin , Zhibin Gou , Yeyun Gong , Xiao Liu , Yelong Shen , Ruochen Xu , Chen Lin , Yujiu Yang , Jian Jiao , Nan Duan , Weizhu Chen

Large language models have made remarkable progress in the field of molecular science, particularly in understanding and generating functional small molecules. This success is largely attributed to the effectiveness of molecular…

Biomolecules · Quantitative Biology 2025-03-14 Zicheng Ma , Chuanliu Fan , Zhicong Wang , Zhenyu Chen , Xiaohan Lin , Yanheng Li , Shihao Feng , Jun Zhang , Ziqiang Cao , Yi Qin Gao

Large language model (LLM) decoding involves generating a sequence of tokens based on a given context, where each token is predicted one at a time using the model's learned probabilities. The typical autoregressive decoding method requires…

Computation and Language · Computer Science 2024-08-20 Xukun Liu , Bowen Lei , Ruqi Zhang , Dongkuan Xu

In the field of medical images, although various works find Swin Transformer has promising effectiveness on pixelwise dense prediction, whether pre-training these models without using extra dataset can further boost the performance for the…

Computer Vision and Pattern Recognition · Computer Science 2024-08-13 Xinrong Hu , Dewen Zeng , Yawen Wu , Xueyang Li , Yiyu Shi

To utilize visual information, Multimodal Large Language Model (MLLM) relies on the perception process of its vision encoder. The completeness and accuracy of visual perception significantly influence the precision of spatial reasoning,…

Computer Vision and Pattern Recognition · Computer Science 2025-02-25 Runpeng Yu , Xinyin Ma , Xinchao Wang

Language models typically tokenize raw text into sequences of subword identifiers from a predefined vocabulary, a process inherently sensitive to typographical errors, length variations, and largely oblivious to the internal structure of…

Computation and Language · Computer Science 2024-10-07 Yekun Chai , Yewei Fang , Qiwei Peng , Xuhong Li

The exponential growth of Large Multimodal Models (LMMs) has driven advancements in cross-modal reasoning but at significant computational costs. In this work, we focus on visual language models. We highlight the redundancy and inefficiency…

Computer Vision and Pattern Recognition · Computer Science 2025-04-28 Yasmine Omri , Parth Shroff , Thierry Tambe