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Biomedical Knowledge Graphs (BKGs) integrate diverse datasets to elucidate complex relationships within the biomedical field. Effective link prediction on these graphs can uncover valuable connections, such as potential novel drug-disease…

Computation and Language · Computer Science 2025-07-01 Tien Dang , Viet Thanh Duy Nguyen , Minh Tuan Le , Truong-Son Hy

Knowledge graph embedding (KGE) aims at learning powerful representations to benefit various artificial intelligence applications. Meanwhile, contrastive learning has been widely leveraged in graph learning as an effective mechanism to…

Artificial Intelligence · Computer Science 2023-06-14 Ke Liang , Yue Liu , Sihang Zhou , Wenxuan Tu , Yi Wen , Xihong Yang , Xiangjun Dong , Xinwang Liu

Learning the embeddings of knowledge graphs (KG) is vital in artificial intelligence, and can benefit various downstream applications, such as recommendation and question answering. In recent years, many research efforts have been proposed…

Artificial Intelligence · Computer Science 2022-10-25 Zhiping Luo , Wentao Xu , Weiqing Liu , Jiang Bian , Jian Yin , Tie-Yan Liu

Incorporating Knowledge Graphs (KG) into recommeder system has attracted considerable attention. Recently, the technical trend of Knowledge-aware Recommendation (KGR) is to develop end-to-end models based on graph neural networks (GNNs).…

Information Retrieval · Computer Science 2022-08-23 Ding Zou , Wei Wei , Ziyang Wang , Xian-Ling Mao , Feida Zhu , Rui Fang , Dangyang Chen

Knowledge Graph (KG) errors introduce non-negligible noise, severely affecting KG-related downstream tasks. Detecting errors in KGs is challenging since the patterns of errors are unknown and diverse, while ground-truth labels are rare or…

Machine Learning · Computer Science 2022-11-21 Qinggang Zhang , Junnan Dong , Keyu Duan , Xiao Huang , Yezi Liu , Linchuan Xu

Molecular representation learning contributes to multiple downstream tasks such as molecular property prediction and drug design. To properly represent molecules, graph contrastive learning is a promising paradigm as it utilizes…

Machine Learning · Computer Science 2022-03-14 Yin Fang , Qiang Zhang , Haihong Yang , Xiang Zhuang , Shumin Deng , Wen Zhang , Ming Qin , Zhuo Chen , Xiaohui Fan , Huajun Chen

Leveraging domain knowledge including fingerprints and functional groups in molecular representation learning is crucial for chemical property prediction and drug discovery. When modeling the relation between graph structure and molecular…

Machine Learning · Computer Science 2021-03-25 Yin Fang , Haihong Yang , Xiang Zhuang , Xin Shao , Xiaohui Fan , Huajun Chen

Knowledge Graph Embeddings (KGE) have become a quite popular class of models specifically devised to deal with ontologies and graph structure data, as they can implicitly encode statistical dependencies between entities and relations in a…

Artificial Intelligence · Computer Science 2023-03-27 Michelangelo Diligenti , Francesco Giannini , Stefano Fioravanti , Caterina Graziani , Moreno Falaschi , Giuseppe Marra

Knowledge graph (KG) embedding encodes the entities and relations from a KG into low-dimensional vector spaces to support various applications such as KG completion, question answering, and recommender systems. In real world, knowledge…

Databases · Computer Science 2022-06-02 Tianxing Wu , Arijit Khan , Melvin Yong , Guilin Qi , Meng Wang

Knowledge graphs and structural causal models have each proven valuable for organizing biomedical knowledge and estimating causal effects, but remain largely disconnected: knowledge graphs encode qualitative relationships focusing on facts…

Artificial Intelligence · Computer Science 2025-05-13 Sumyyah Toonsi , Paul Schofield , Robert Hoehndorf

Word embeddings play a significant role in today's Natural Language Processing tasks and applications. While pre-trained models may be directly employed and integrated into existing pipelines, they are often fine-tuned to better fit with…

Computation and Language · Computer Science 2022-11-10 Denys Amore Bondarenko , Roger Ferrod , Luigi Di Caro

Molecular representation learning is pivotal in predicting molecular properties and advancing drug design. Traditional methodologies, which predominantly rely on homogeneous graph encoding, are limited by their inability to integrate…

Machine Learning · Computer Science 2025-03-24 Mukun Chen , Jia Wu , Shirui Pan , Fu Lin , Bo Du , Xiuwen Gong , Wenbin Hu

Knowledge Graph Embedding (KGE) methods have gained enormous attention from a wide range of AI communities including Natural Language Processing (NLP) for text generation, classification and context induction. Embedding a huge number of…

Artificial Intelligence · Computer Science 2022-09-19 Mojtaba Moattari , Sahar Vahdati , Farhana Zulkernine

Knowledge graph (KG) is used to represent data in terms of entities and structural relations between the entities. This representation can be used to solve complex problems such as recommendation systems and question answering. In this…

Artificial Intelligence · Computer Science 2022-12-09 Ajay Kumar Gogineni

In recommender systems, knowledge graph (KG) can offer critical information that is lacking in the original user-item interaction graph (IG). Recent process has explored this direction and shows that contrastive learning is a promising way…

Information Retrieval · Computer Science 2023-09-26 Haibo Ye , Xinjie Li , Yuan Yao , Hanghang Tong

In the last decades, people have been consuming and combining more drugs than before, increasing the number of Drug-Drug Interactions (DDIs). To predict unknown DDIs, recently, studies started incorporating Knowledge Graphs (KGs) since they…

Artificial Intelligence · Computer Science 2023-08-14 Lizzy Farrugia , Lilian M. Azzopardi , Jeremy Debattista , Charlie Abela

Molecular representation learning is vital for various downstream applications, including the analysis and prediction of molecular properties and side effects. While Graph Neural Networks (GNNs) have been a popular framework for modeling…

Machine Learning · Computer Science 2025-02-18 Pengcheng Jiang , Cao Xiao , Tianfan Fu , Parminder Bhatia , Taha Kass-Hout , Jimeng Sun , Jiawei Han

Knowledge graph embeddings (KGE) apply machine learning methods on knowledge graphs (KGs) to provide non-classical reasoning capabilities based on similarities and analogies. The learned KG embeddings are typically used to answer queries by…

Artificial Intelligence · Computer Science 2025-01-28 Yuqicheng Zhu , Nico Potyka , Jiarong Pan , Bo Xiong , Yunjie He , Evgeny Kharlamov , Steffen Staab

Knowledge graphs represent factual knowledge about the world as relationships between concepts and are critical for intelligent decision making in enterprise applications. New knowledge is inferred from the existing facts in the knowledge…

Machine Learning · Computer Science 2022-10-04 Peru Bhardwaj

Knowledge Graphs (KG) are gaining increasing attention in both academia and industry. Despite their diverse benefits, recent research have identified social and cultural biases embedded in the representations learned from KGs. Such biases…

Machine Learning · Computer Science 2021-02-22 Mario Arduini , Lorenzo Noci , Federico Pirovano , Ce Zhang , Yash Raj Shrestha , Bibek Paudel
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