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Multimodal protein language models (PLMs) integrate sequence and token-based structural information, serving as a powerful foundation for protein modeling, generation, and design. However, the reliance on tokenizing 3D structures into…

Machine Learning · Computer Science 2025-06-13 Cheng-Yen Hsieh , Xinyou Wang , Daiheng Zhang , Dongyu Xue , Fei Ye , Shujian Huang , Zaixiang Zheng , Quanquan Gu

Vision-language models (VLMs), serve as foundation models for multi-modal applications such as image captioning and text-to-image generation. Recent studies have highlighted limitations in VLM text encoders, particularly in areas like…

Computer Vision and Pattern Recognition · Computer Science 2024-12-12 Sri Harsha Dumpala , David Arps , Sageev Oore , Laura Kallmeyer , Hassan Sajjad

Effectively representing 3D scenes for Multimodal Large Language Models (MLLMs) is crucial yet challenging. Existing approaches commonly only rely on 2D image features and use varied tokenization approaches. This work presents a rigorous…

Computer Vision and Pattern Recognition · Computer Science 2025-06-09 Hugues Thomas , Chen Chen , Jian Zhang

With the rapid advancement of artificial intelligence and robotics, the integration of Large Language Models (LLMs) with 3D vision is emerging as a transformative approach to enhancing robotic sensing technologies. This convergence enables…

Robotics · Computer Science 2025-11-19 Vinit Mehta , Charu Sharma , Karthick Thiyagarajan

Large Language Models (LLMs) have significantly advanced molecular discovery, but existing multimodal molecular architectures fundamentally rely on autoregressive (AR) backbones. This strict left-to-right inductive bias is sub-optimal for…

Artificial Intelligence · Computer Science 2026-04-08 Seohyeon Shin , HanJun Choi , Jun-Hyung Park , Hong Kook Kim , Mansu Kim

This work explores expanding the capabilities of large language models (LLMs) pretrained on text to generate 3D meshes within a unified model. This offers key advantages of (1) leveraging spatial knowledge already embedded in LLMs, derived…

Machine Learning · Computer Science 2024-11-15 Zhengyi Wang , Jonathan Lorraine , Yikai Wang , Hang Su , Jun Zhu , Sanja Fidler , Xiaohui Zeng

Current Large Language Models (LLMs) for understanding proteins primarily treats amino acid sequences as a text modality. Meanwhile, Protein Language Models (PLMs), such as ESM-2, have learned massive sequential evolutionary knowledge from…

Machine Learning · Computer Science 2024-12-17 Nuowei Liu , Changzhi Sun , Tao Ji , Junfeng Tian , Jianxin Tang , Yuanbin Wu , Man Lan

Molecular representation learning plays a crucial role in advancing applications such as drug discovery and material design. Existing work leverages 2D and 3D modalities of molecular information for pre-training, aiming to capture…

Machine Learning · Computer Science 2025-10-09 Tengwei Song , Min Wu , Yuan Fang

Recent advancements in multimodal large language models (MLLMs) have demonstrated considerable potential for comprehensive 3D scene understanding. However, existing approaches typically utilize only one or a limited subset of 3D modalities,…

Computer Vision and Pattern Recognition · Computer Science 2025-05-28 Yue Zhang , Yingzhao Jian , Hehe Fan , Yi Yang , Roger Zimmermann

Large language models (LLMs) have demonstrated broad utility across molecular domains, spanning drug discovery and materials design. Analyzing LLMs' latent representations is crucial for elucidating their underlying mechanisms, improving…

Machine Learning · Computer Science 2026-02-03 Zhuoran Li , Xu Sun , Wanyu Lin , Jiannong Cao

With the emergence of diffusion models as a frontline generative model, many researchers have proposed molecule generation techniques with conditional diffusion models. However, the unavoidable discreteness of a molecule makes it difficult…

Machine Learning · Computer Science 2025-06-05 Jinho Chang , Jong Chul Ye

In recent years, multimodal large language models (MLLMs) have shown remarkable capabilities in tasks like visual question answering and common sense reasoning, while visual perception models have made significant strides in perception…

Computer Vision and Pattern Recognition · Computer Science 2024-06-25 Guanqun Wang , Xinyu Wei , Jiaming Liu , Ray Zhang , Yichi Zhang , Kevin Zhang , Maurice Chong , Shanghang Zhang

We introduce Part-X-MLLM, a native 3D multimodal large language model that unifies diverse 3D tasks by formulating them as programs in a structured, executable grammar. Given an RGB point cloud and a natural language prompt, our model…

Computer Vision and Pattern Recognition · Computer Science 2025-11-18 Chunshi Wang , Junliang Ye , Yunhan Yang , Yang Li , Zizhuo Lin , Jun Zhu , Zhuo Chen , Yawei Luo , Chunchao Guo

Medical image analysis is essential to clinical diagnosis and treatment, which is increasingly supported by multi-modal large language models (MLLMs). However, previous research has primarily focused on 2D medical images, leaving 3D images…

Computer Vision and Pattern Recognition · Computer Science 2024-04-02 Fan Bai , Yuxin Du , Tiejun Huang , Max Q. -H. Meng , Bo Zhao

Proteins are essential macromolecules defined by their amino acid sequences, which determine their three-dimensional structures and, consequently, their functions in all living organisms. Therefore, generative protein modeling necessitates…

Machine Learning · Computer Science 2024-10-18 Xinyou Wang , Zaixiang Zheng , Fei Ye , Dongyu Xue , Shujian Huang , Quanquan Gu

Recently, 3D understanding has become popular to facilitate autonomous agents to perform further decisionmaking. However, existing 3D datasets and methods are often limited to specific tasks. On the other hand, recent progress in Large…

Computer Vision and Pattern Recognition · Computer Science 2023-12-19 Mingsheng Li , Xin Chen , Chi Zhang , Sijin Chen , Hongyuan Zhu , Fukun Yin , Gang Yu , Tao Chen

Recent advancements in Multimodal Large Language Models (MLLMs) have significantly enhanced performance on 2D visual tasks. However, improving their spatial intelligence remains a challenge. Existing 3D MLLMs always rely on additional 3D or…

Computer Vision and Pattern Recognition · Computer Science 2026-05-20 Diankun Wu , Fangfu Liu , Yi-Hsin Hung , Yueqi Duan

Multi-modal Large Language Models (MLLMs) have demonstrated remarkable capabilities in understanding and generating content across various modalities, such as images and text. However, their interpretability remains a challenge, hindering…

Computer Vision and Pattern Recognition · Computer Science 2024-05-29 Loris Giulivi , Giacomo Boracchi

Large Language Models (LLMs) have achieved remarkable success and have been applied across various scientific fields, including chemistry. However, many chemical tasks require the processing of visual information, which cannot be…

3D medical image analysis is essential for modern healthcare, yet traditional task-specific models are inadequate due to limited generalizability across diverse clinical scenarios. Multimodal large language models (MLLMs) offer a promising…

Computer Vision and Pattern Recognition · Computer Science 2025-10-22 Yiming Shi , Xun Zhu , Kaiwen Wang , Ying Hu , Chenyi Guo , Miao Li , Ji Wu
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