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The increasing volume of drug combinations in modern therapeutic regimens needs reliable methods for predicting drug-drug interactions (DDIs). While Large Language Models (LLMs) have revolutionized various domains, their potential in…

Machine Learning · Computer Science 2025-02-12 Gabriele De Vito , Filomena Ferrucci , Athanasios Angelakis

Accurate prediction of Drug-Target Affinity (DTA) is of vital importance in early-stage drug discovery, facilitating the identification of drugs that can effectively interact with specific targets and regulate their activities. While wet…

Biomolecules · Quantitative Biology 2023-10-18 Qizhi Pei , Lijun Wu , Jinhua Zhu , Yingce Xia , Shufang Xie , Tao Qin , Haiguang Liu , Tie-Yan Liu , Rui Yan

Recent contrastive learning methods have shown to be effective in various tasks, learning generalizable representations invariant to data augmentation thereby leading to state of the art performances. Regarding the multifaceted nature of…

Machine Learning · Computer Science 2022-05-27 MinGyu Choi , Wonseok Shin , Yijingxiu Lu , Sun Kim

Accurate prediction of compound-protein interactions (CPI) remains a cornerstone challenge in computational drug discovery. While existing sequence-based approaches leverage molecular fingerprints or graph representations, they critically…

Machine Learning · Computer Science 2025-04-08 Ngoc-Quang Nguyen

Simultaneous administration of multiple drugs can have synergistic or antagonistic effects as one drug can affect activities of other drugs. Synergistic effects lead to improved therapeutic outcomes, whereas, antagonistic effects can be…

Computation and Language · Computer Science 2017-08-15 Sunil Kumar Sahu , Ashish Anand

The discovery of novel drug target (DT) interactions is an important step in the drug development process. The majority of computer techniques for predicting DT interactions have focused on binary classification, with the goal of…

Machine Learning · Computer Science 2023-03-22 Partho Ghosh , Md. Aynal Haque

Image-based object pose estimation sounds amazing because in real applications the shape of object is oftentimes not available or not easy to take like photos. Although it is an advantage to some extent, un-explored shape information in 3D…

Computer Vision and Pattern Recognition · Computer Science 2022-06-07 Zhidan Liu , Zhen Xing , Xiangdong Zhou , Yijiang Chen , Guichun Zhou

We propose an end-to-end model to predict drug-drug interactions (DDIs) by employing graph-augmented convolutional networks. And this is implemented by combining graph CNN with an attentive pooling network to extract structural relations…

Machine Learning · Computer Science 2025-07-01 Yi Zhong , Xueyu Chen , Yu Zhao , Xiaoming Chen , Tingfang Gao , Zuquan Weng

Significant differences in protein structures hinder the generalization of existing drug-target interaction (DTI) models, which often rely heavily on pre-learned binding principles or detailed annotations. In contrast, BioBridge designs an…

Machine Learning · Computer Science 2025-03-28 Xiaoqing Lian , Jie Zhu , Tianxu Lv , Shiyun Nie , Hang Fan , Guosheng Wu , Yunjun Ge , Lihua Li , Xiangxiang Zeng , Xiang Pan

Consider two sets of entities and their members' mutual affinity values, say drug-target affinities (DTA). Drugs and targets are said to interact in their effects on DTAs if drug's effect on it depends on the target. Presence of interaction…

Machine Learning · Computer Science 2025-10-17 Tapio Pahikkala , Riikka Numminen , Parisa Movahedi , Napsu Karmitsa , Antti Airola

Accurate travel time estimation (TTE) plays a crucial role in intelligent transportation systems. However, it remains challenging due to heterogeneous data sources and complex traffic dynamics. Moreover, traditional approaches typically…

Machine Learning · Computer Science 2026-01-27 Zhi Liu , Xuyuan Hu , Xiao Han , Zhehao Dai , Zhaolin Deng , Guojiang Shen , Xiangjie Kong

State-of-the-art 3D models, which excel in recognition tasks, typically depend on large-scale datasets and well-defined category sets. Recent advances in multi-modal pre-training have demonstrated potential in learning 3D representations by…

Multimedia · Computer Science 2024-04-23 Ben Fei , Yixuan Li , Weidong Yang , Lipeng Ma , Ying He

In drug discovery, identifying drug-target interactions (DTIs) via experimental approaches is a tedious and expensive procedure. Computational methods efficiently predict DTIs and recommend a small part of potential interacting pairs for…

Quantitative Methods · Quantitative Biology 2022-01-19 Bin Liu , Grigorios Tsoumakas

Identifying novel drug-target interactions (DTI) is a critical and rate limiting step in drug discovery. While deep learning models have been proposed to accelerate the identification process, we show that state-of-the-art models fail to…

Drug target binding affinity (DTA) is a key criterion for drug screening. Existing experimental methods are time-consuming and rely on limited structural and domain information. While learning-based methods can model sequence and structural…

Machine Learning · Computer Science 2024-06-26 Xi Xiao , Wentao Wang , Jiacheng Xie , Lijing Zhu , Gaofei Chen , Zhengji Li , Tianyang Wang , Min Xu

Missing modalities pose a major issue in Alzheimer's Disease (AD) diagnosis, as many subjects lack full imaging data due to cost and clinical constraints. While multi-modal learning leverages complementary information, most existing methods…

Image and Video Processing · Electrical Eng. & Systems 2025-08-28 Yanfei Li , Teng Yin , Wenyi Shang , Jingyu Liu , Xi Wang , Kaiyang Zhao

3D Multi-object tracking (MOT) is crucial to autonomous systems. Recent work uses a standard tracking-by-detection pipeline, where feature extraction is first performed independently for each object in order to compute an affinity matrix.…

Computer Vision and Pattern Recognition · Computer Science 2020-06-15 Xinshuo Weng , Yongxin Wang , Yunze Man , Kris Kitani

Existing contrastive learning methods rely on pairwise sample contrast $z_x^\top z_{x'}$ to learn data representations, but the learned features often lack clear interpretability from a human perspective. Theoretically, it lacks feature…

Computer Vision and Pattern Recognition · Computer Science 2023-10-31 Qi Zhang , Yifei Wang , Yisen Wang

Contrastive Language-Image Pre-training (CLIP) has shown impressive performance in aligning visual and textual representations. Recent studies have extended this paradigm to 3D vision to improve scene understanding for autonomous driving. A…

Computer Vision and Pattern Recognition · Computer Science 2026-03-10 Ximeng Tao , Dimitar Filev , Gaurav Pandey

In the treatment of complex diseases, treatment regimens using a single drug often yield limited efficacy and can lead to drug resistance. In contrast, combination drug therapies can significantly improve therapeutic outcomes through…

Machine Learning · Computer Science 2026-04-24 Jiyan Song , Wenyang Wang , Chengcheng Yan , Zhiquan Han , Feifei Zhao