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Recent advances in generative modeling show that pretrained representations can improve generation as conditioning features or alignment targets. Motivated by this, we study protein representations for predicting structures beyond…

生物大分子 · 定量生物学 2026-05-27 Taewon Kim , Hyosoon Jang , Hyunjin Seo , Seonghwan Seo , Hyeongwoo Kim , Wonho Zhung , Mingyeong Shin , Wooyoun Kim , Sungsoo Ahn

The detailed analysis of molecular structures and properties holds great potential for drug development discovery through machine learning. Developing an emergent property in the model to understand molecules would broaden the horizons for…

Chemical pretrained models, sometimes referred to as foundation models, are receiving considerable interest for drug discovery applications. The general chemical knowledge extracted from self-supervised training has the potential to improve…

机器学习 · 计算机科学 2025-10-15 Matthew Adrian , Yunsie Chung , Kevin Boyd , Saee Paliwal , Srimukh Prasad Veccham , Alan C. Cheng

The widespread application of multimodal machine learning models like GPT-4 has revolutionized various research fields including computer vision and natural language processing. However, its implementation in materials informatics remains…

材料科学 · 物理学 2023-09-12 Sheng Gong , Shuo Wang , Taishan Zhu , Yang Shao-Horn , Jeffrey C. Grossman

Tasks that involve high-resolution dense prediction require a modeling of both local and global patterns in a large input field. Although the local and global structures often depend on each other and their simultaneous modeling is…

计算机视觉与模式识别 · 计算机科学 2021-06-10 Naoya Takahashi , Yuki Mitsufuji

Multimodal fusion frameworks, which integrate diverse medical imaging modalities (e.g., MRI, CT), have shown great potential in applications such as skin cancer detection, dementia diagnosis, and brain tumor prediction. However, existing…

计算机视觉与模式识别 · 计算机科学 2026-02-19 J. Dhar , M. K. Pandey , D. Chakladar , M. Haghighat , A. Alavi , S. Mistry , N. Zaidi

Identifying the interaction targets of bioactive compounds is a foundational element for deciphering their pharmacological effects. Target prediction algorithms equip researchers with an effective tool to rapidly scope and explore potential…

机器学习 · 计算机科学 2025-01-03 Haojie Wang , Zhe Zhang , Haotian Gao , Xiangying Zhang , Jingyuan Li , Zhihang Chen , Xinchong Chen , Yifei Qi , Yan Li , Renxiao Wang

In this work, we propose a simple transformer-based baseline for multimodal molecular representation learning, integrating three distinct modalities: SMILES strings, 2D graph representations, and 3D conformers of molecules. A key aspect of…

机器学习 · 计算机科学 2024-10-25 Andrei Manolache , Dragos Tantaru , Mathias Niepert

Determining the aqueous solubility of molecules is a vital step in many pharmaceutical, environmental, and energy storage applications. Despite efforts made over decades, there are still challenges associated with developing a solubility…

材料科学 · 物理学 2022-09-05 Gihan Panapitiya , Michael Girard , Aaron Hollas , Vijay Murugesan , Wei Wang , Emily Saldanha

Machine Learning models have emerged as a powerful tool for fast and accurate prediction of different crystalline properties. Exiting state-of-the-art models rely on a single modality of crystal data i.e. crystal graph structure, where they…

材料科学 · 物理学 2023-07-12 Kishalay Das , Pawan Goyal , Seung-Cheol Lee , Satadeep Bhattacharjee , Niloy Ganguly

Adsorption energy is a key descriptor of catalytic reactivity. It is fundamentally defined as the difference between the relaxed total energy of the adsorbate-surface system and that of an appropriate reference state; therefore, the…

机器学习 · 计算机科学 2025-12-24 Yanjie Li , Jian Xu , Xueqing Chen , Lina Yu , Shiming Xiang , Weijun Li , Cheng-lin Liu

Sequential recommendation (SR) systems excel at capturing users' dynamic preferences by leveraging their interaction histories. Most existing SR systems assign a single embedding vector to each item to represent its features, adopting…

信息检索 · 计算机科学 2026-01-21 Mingrui Liu , Sixiao Zhang , Cheng Long

Current multimodal fusion approaches in computational oncology primarily focus on integrating multi-gigapixel histology whole slide images (WSIs) with genomic or transcriptomic data, demonstrating improved survival prediction. We…

计算机视觉与模式识别 · 计算机科学 2025-09-25 Manahil Raza , Ayesha Azam , Talha Qaiser , Nasir Rajpoot

Drug-drug interactions (DDIs) represent a critical challenge in pharmacology, often leading to adverse drug reactions with significant implications for patient safety and healthcare outcomes. While graph-based methods have achieved strong…

机器学习 · 计算机科学 2025-07-15 Mengjie Chen , Ming Zhang , Cunquan Qu

Recent advancements in multi-modal retrieval-augmented generation (mRAG), which enhance multi-modal large language models (MLLMs) with external knowledge, have demonstrated that the collective intelligence of multiple agents can…

人工智能 · 计算机科学 2025-11-26 Weizi Shao , Taolin Zhang , Zijie Zhou , Chen Chen , Chengyu Wang , Xiaofeng He

The multimodal fusion of images and scene captions has been extensively explored and applied in various fields. However, when dealing with complex remote sensing (RS) scenes, existing studies have predominantly concentrated on architectural…

计算机视觉与模式识别 · 计算机科学 2026-05-12 Ziyi Wang , Xianping Ma , Ziyao Wang , Hongyang Zhang , Man On Pun

Molecular activity prediction is critical in drug design. Machine learning techniques such as kernel methods and random forests have been successful for this task. These models require fixed-size feature vectors as input while the molecules…

机器学习 · 计算机科学 2018-01-30 Trang Pham , Truyen Tran , Svetha Venkatesh

Molecular Property Prediction (MPP) task involves predicting biochemical properties based on molecular features, such as molecular graph structures, contributing to the discovery of lead compounds in drug development. To address data…

机器学习 · 计算机科学 2023-12-07 Xu Yao , Shuang Liang , Songqiao Han , Hailiang Huang

Discovering molecules with desirable molecular properties, including ADMET profiles, is of great importance in drug discovery. Existing approaches typically employ deep learning models, such as Graph Neural Networks (GNNs) and Transformers,…

生物大分子 · 定量生物学 2025-05-13 Huiyang Hong , Xinkai Wu , Hongyu Sun , Chaoyang Xie , Qi Wang , Yuquan Li

Reactive chemistry of molecular hydrogen at surfaces, notably dissociative sticking and hydrogen evolution, plays a crucial role in energy storage and fuel cells. Theoretical studies can help to decipher underlying mechanisms and reaction…