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The identification of drug-target interactions (DTI) is critical for drug discovery and repositioning, as it reveals potential therapeutic uses of existing drugs, accelerating development and reducing costs. However, most existing models…

Machine Learning · Computer Science 2025-07-22 Xiang Zhao , Ruijie Li , Qiao Ning , Shikai Guo , Hui Li , Qian Ma

The efficiency and reliability of real-time incident detection models directly impact the affected corridors' traffic safety and operational conditions. The recent emergence of cloud-based quantum computing infrastructure and innovations in…

Recent years have seen a surge of novel neural network architectures for the integration of multi-omics data for prediction. Most of the architectures include either encoders alone or encoders and decoders, i.e., autoencoders of various…

Machine Learning · Computer Science 2023-02-15 Tony Hauptmann , Stefan Kramer

Predicting whether a molecule can cross the blood-brain barrier (BBB) is a key step in early-stage neuro-pharmaceutical design, directly influencing the efficiency and success rate of drug development. Traditional methods based on…

Quantitative Methods · Quantitative Biology 2026-03-16 Zihan Yang , Yuchen Xiao

For large libraries of small molecules, exhaustive combinatorial chemical screens become infeasible to perform when considering a range of disease models, assay conditions, and dose ranges. Deep learning models have achieved state of the…

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

Mental health challenges among young adults, are on the rise, necessitating effective solutions such as digital mental health interventions (DMHIs). Despite their promise, DMHIs face significant adoption barriers, including low initial…

Machine Learning · Computer Science 2026-04-13 Ha Na Cho , Daniel Eisenberg , Cheryl King , Kai Zheng

Virtual screening (VS) is an essential task in drug discovery, focusing on the identification of small-molecule ligands that bind to specific protein pockets. Existing deep learning methods, from early regression models to recent…

Machine Learning · Computer Science 2025-11-11 Bowei He , Bowen Gao , Yankai Chen , Yanyan Lan , Chen Ma , Philip S. Yu , Ya-Qin Zhang , Wei-Ying Ma

Diabetes is currently one of the most common, dangerous, and costly diseases in the world that is caused by an increase in blood sugar or a decrease in insulin in the body. Diabetes can have detrimental effects on people's health if…

Machine Learning · Computer Science 2021-03-16 Jafar Abdollahi , Babak Nouri-Moghaddam

Large-scale Electronic Health Record (EHR) databases have become indispensable in supporting clinical decision-making through data-driven treatment recommendations. However, existing medication recommender methods often struggle with a user…

Machine Learning · Computer Science 2026-02-02 Arya Hadizadeh Moghaddam , Mohsen Nayebi Kerdabadi , Dongjie Wang , Mei Liu , Zijun Yao

Publicly available collections of drug-like molecules have grown to comprise 10s of billions of possibilities in recent history due to advances in chemical synthesis. Traditional methods for identifying "hit" molecules from a large…

Accurate prediction of drug-target interactions (DTI) is crucial for drug discovery. Recently, deep learning (DL) models for show promising performance for DTI prediction. However, these models can be difficult to use for both computer…

Machine Learning · Computer Science 2020-12-11 Kexin Huang , Tianfan Fu , Lucas Glass , Marinka Zitnik , Cao Xiao , Jimeng Sun

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

In this study, we intend to solve a mutual information problem in interacting molecules of any type, such as proteins, nucleic acids, and small molecules. Using machine learning techniques, we accurately predict pairwise interactions, which…

Machine Learning · Statistics 2016-01-28 Andrew Schaumberg , Angela Yu , Tatsuhiro Koshi , Xiaochan Zong , Santoshkalyan Rayadhurgam

Alcohol consumption has a significant impact on individuals' health, with even more pronounced consequences when consumption becomes excessive. One approach to promoting healthier drinking habits is implementing just-in-time interventions,…

Recent years have witnessed the rapid accumulation of massive electronic medical records (EMRs), which highly support the intelligent medical services such as drug recommendation. However, prior arts mainly follow the traditional…

Information Retrieval · Computer Science 2021-02-09 Zhi Zheng , Chao Wang , Tong Xu , Dazhong Shen , Penggang Qin , Baoxing Huai , Tongzhu Liu , Enhong Chen

Accurate and robust prediction of drug-target interactions (DTIs) plays a vital role in drug discovery. Despite extensive efforts have been invested in predicting novel DTIs, existing approaches still suffer from insufficient labeled data…

Biomolecules · Quantitative Biology 2023-12-27 Zhangli Lu , Chuqi Lei , Kaili Wang , Libo Qin , Jing Tang , Min Li

Prediction of protein-ligand interactions (PLI) plays a crucial role in drug discovery as it guides the identification and optimization of molecules that effectively bind to target proteins. Despite remarkable advances in deep…

Biomolecules · Quantitative Biology 2023-07-18 Seokhyun Moon , Sang-Yeon Hwang , Jaechang Lim , Woo Youn Kim

In this research, we present our work participation for the DrugProt task of BioCreative VII challenge. Drug-target interactions (DTIs) are critical for drug discovery and repurposing, which are often manually extracted from the…

Computation and Language · Computer Science 2021-11-09 Jehad Aldahdooh , Ziaurrehman Tanoli , Jing Tang

The identification of active binding drugs for target proteins (termed as drug-target interaction prediction) is the key challenge in virtual screening, which plays an essential role in drug discovery. Although recent deep learning-based…

Machine Learning · Computer Science 2021-10-18 Siyuan Liu , Yusong Wang , Tong Wang , Yifan Deng , Liang He , Bin Shao , Jian Yin , Nanning Zheng , Tie-Yan Liu
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