We report development of a data infrastructure for drug repurposing that takes advantage of two currently available chemical ontologies. The data infrastructure includes a database of compound- target associations augmented with molecular ontological labels. It also contains two computational tools for prediction of new associations. We describe two drug-repurposing systems: one, Nascent Ontological Information Retrieval for Drug Repurposing (NOIR-DR), based on an information retrieval strategy, and another, based on non-negative matrix factorization together with compound similarity, that was inspired by recommender systems. We report the performance of both tools on a drug-repurposing task.
DrugReason: Dynamic Multi-View Reasoning over Knowledge Graph and Language Evidence for Drug Repurposing
University of North Carolina at Chapel Hill（北卡罗来纳大学教堂山分校）；Stevens Institute of Technology（史蒂文斯理工学院）；Emory University（埃默里大学）；Massachusetts Institute of Technology（麻省理工学院）
Mining On Alzheimer's Diseases Related Knowledge Graph to Identity Potential AD-related Semantic Triples for Drug Repurposing
University of Texas Health Science Center at Houston（休斯顿德克萨斯大学健康科学中心）；University of Minnesota（明尼苏达大学）；University of Pennsylvania（宾夕法尼亚大学）；University of Maryland School of Medicine（马里兰大学医学院）
COVID-19 Literature Knowledge Graph Construction and Drug Repurposing Report Generation
University of Illinois at Urbana-Champaign（伊利诺伊大学厄巴纳-香槟分校）；Columbia University（哥伦比亚大学）；Brandeis University（布兰迪斯大学）；University of Washington（华盛顿大学）；University of California, Los Angeles（加利福尼亚大学洛杉矶分校）；Colorado University（科罗拉多大学）；Army Research Lab（陆军研究实验室）；QS2；Department of Defense（国防部）
SMI: Ontology-Grounded Semantic IDs for Hierarchy-Aware Medical Concept Representation
School of Electrical Engineering and Computer Science, Ohio University（俄亥俄大学电气与计算机工程学院）；University of Southern California（南加利福尼亚大学）；School of Computer Science, McGill University（麦吉尔大学计算机学院）；Northwestern University（西北大学）；University of Washington（华盛顿大学）
SMR: Medical Knowledge Graph Embedding for Safe Medicine Recommendation
Shanghai Shuguang Hospital Affiliated to Shanghai University of Traditional Chinese Medicine（上海中医药大学附属曙光医院）；Southeast University（东南大学）；Tongji University（同济大学）；The University of Queensland（昆士兰大学）；Xi’an Jiaotong University（西安交通大学）
An Ontology-Based Artificial Intelligence Model for Medicine Side-Effect Prediction: Taking Traditional Chinese Medicine as An Example
School of Information and Software Engineering, University of Electronic Science and Technology of China（电子科技大学信息与软件工程学院）；School of Electrical Engineering and Telecommunications, University of New South Wales（新南威尔士大学电气工程与电信学院）；Faculty of Medicine, Ludwig Maximilian University of Munich（慕尼黑大学医学院）；The First Clinical Medical College, Zhejiang Chinese Medicine University（浙江中医药大学第一临床医学院）
Cell-ontology guided transcriptome foundation model
Mila - Québec AI Institute（米拉-魁北克人工智能研究所）；University of Montréal（蒙特利尔大学）；McGill University（麦吉尔大学）；Cornell University（康奈尔大学）；HEC Montréal（蒙特利尔高等商学院）；CIFAR AI Chair（加拿大高级研究所人工智能主席职位）
Drug Repurposing for COVID-19 via Knowledge Graph Completion
University of Minnesota（明尼苏达大学）；University of Ljubljana（卢布尔雅那大学）；Pontifical Catholic University of Rio de Janeiro（里约热内卢天主教大学）；University of Illinois at Urbana-Champaign（伊利诺伊大学厄巴纳-香槟分校）
eDarkTrends: Harnessing Social Media Trends in Substance use disorders for Opioid Listings on Cryptomarket
Artificial Intelligence Institute, University of South Carolina（南卡罗来纳大学人工智能研究所）；Mahidol University（玛希隆大学）；BITS Pilani（比拉技术与科学学院皮拉尼校区）；Arizona State University（亚利桑那州立大学）；Ohio State University（俄亥俄州立大学）
A data science approach to drug safety: Semantic and visual mining of adverse drug events from clinical trials of pain treatments
Université Sorbonne Paris Nord（索邦巴黎西岱大学）；Sorbonne Université（索邦大学）；INSERM（法国国家健康与医学研究院）；Laboratoire de Recherche en Informatique, CNRS/Université Paris-Sud/Université Paris-Saclay（计算机研究实验室，法国国家科学研究中心/巴黎南大学/巴黎萨克雷大学）
Investigating ADR mechanisms with knowledge graph mining and explainable AI
Université de Lorraine（洛林大学）；CNRS（法国国家科学研究中心）；Inria（法国国家信息与自动化研究所）；LORIA（洛林计算机科学及其应用实验室）；Orange Labs（奥兰治实验室）；LIMICS（LIMICS实验室）；Inserm（法国国家健康与医学研究院）；Université Sorbonne Paris Nord（索邦巴黎北大学）；Sorbonne Université（索邦大学）；CHU de St Etienne（圣艾蒂安大学附属医院）；NGERE（NGERE实验室）；Centre Régional de Pharmacovigilance（区域药物警戒中心）；CHRU de Nancy（南锡大学区域医院中心）；Inria Paris（法国国家信息与自动化研究所巴黎中心）；Université de Paris（巴黎大学）
