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Knowledge representation is a major topic in AI, and many studies attempt to represent entities and relations of knowledge base in a continuous vector space. Among these attempts, translation-based methods build entity and relation vectors…

Computation and Language · Computer Science 2015-09-29 Han Xiao , Minlie Huang , Yu Hao , Xiaoyan Zhu

The link prediction task on knowledge graphs without explicit negative triples in the training data motivates the usage of rank-based metrics. Here, we review existing rank-based metrics and propose desiderata for improved metrics to…

Machine Learning · Computer Science 2022-04-20 Charles Tapley Hoyt , Max Berrendorf , Mikhail Galkin , Volker Tresp , Benjamin M. Gyori

Knowledge graph embedding (KGE) is a technique that enhances knowledge graphs by addressing incompleteness and improving knowledge retrieval. A limitation of the existing KGE models is their underutilization of ontologies, specifically the…

Social and Information Networks · Computer Science 2025-04-07 Takanori Ugai

In recent years, algebraic topology and its modern development, the theory of persistent homology, has shown great potential in graph representation learning. In this paper, based on the mathematics of algebraic topology, we propose a novel…

Machine Learning · Computer Science 2022-06-14 Zuoyu Yan , Tengfei Ma , Liangcai Gao , Zhi Tang , Chao Chen

Motivation: Biological data and knowledge bases increasingly rely on Semantic Web technologies and the use of knowledge graphs for data integration, retrieval and federated queries. In the past years, feature learning methods that are…

Quantitative Methods · Quantitative Biology 2017-05-01 Mona Alshahrani , Mohammed Asif Khan , Omar Maddouri , Akira R Kinjo , Núria Queralt-Rosinach , Robert Hoehndorf

This paper addresses the problems of missing reasoning chains and insufficient entity-level semantic understanding in large language models when dealing with tasks that require structured knowledge. It proposes a fine-tuning algorithm…

Computation and Language · Computer Science 2025-08-21 Wuyang Zhang , Yexin Tian , Xiandong Meng , Mengjie Wang , Junliang Du

Ontology-based approaches for predicting gene-disease associations include the more classical semantic similarity methods and more recently knowledge graph embeddings. While semantic similarity is typically restricted to hierarchical…

Machine Learning · Computer Science 2021-06-01 Susana Nunes , Rita T. Sousa , Catia Pesquita

Knowledge graphs have proven to be effective for modeling entities and their relationships through the use of ontologies. The recent emergence in interest for using knowledge graphs as a form of information modeling has led to their…

Artificial Intelligence · Computer Science 2023-07-21 Ngoc Luyen Le , Marie-Hélène Abel , Philippe Gouspillou

Structural heterogeneity between knowledge graphs is an outstanding challenge for entity alignment. This paper presents Neighborhood Matching Network (NMN), a novel entity alignment framework for tackling the structural heterogeneity…

Computation and Language · Computer Science 2020-05-13 Yuting Wu , Xiao Liu , Yansong Feng , Zheng Wang , Dongyan Zhao

In the task of Knowledge Graph Completion (KGC), the existing datasets and their inherent subtasks carry a wealth of shared knowledge that can be utilized to enhance the representation of knowledge triplets and overall performance. However,…

Computation and Language · Computer Science 2024-05-14 Yongxue Shan , Jie Zhou , Jie Peng , Xin Zhou , Jiaqian Yin , Xiaodong Wang

In this work, Transition Probability Matrix (TPM) is proposed as a new method for extracting the features of nodes in the graph. The proposed method uses random walks to capture the connectivity structure of a node's close neighborhood. The…

Machine Learning · Computer Science 2023-03-07 Sarmad N. Mohammed , Semra Gündüç

Graph representation learning aim at integrating node contents with graph structure to learn nodes/graph representations. Nevertheless, it is found that many existing graph learning methods do not work well on data with high heterophily…

Machine Learning · Computer Science 2023-10-13 Jincheng Huang , Ping Li , Rui Huang , Chen Na , Acong Zhang

In the rapidly advancing information era, various human behaviors are being precisely recorded in the form of data, including identity information, criminal records, and communication data. Law enforcement agencies can effectively maintain…

Machine Learning · Computer Science 2024-01-17 Fan Lu , Quan Qi , Huaibin Qin

Representing entities and relations in an embedding space is a well-studied approach for machine learning on relational data. Existing approaches, however, primarily focus on simple link structure between a finite set of entities, ignoring…

Artificial Intelligence · Computer Science 2018-09-11 Pouya Pezeshkpour , Liyan Chen , Sameer Singh

The trust in the predictions of Graph Neural Networks is limited by their opaque reasoning process. Prior methods have tried to explain graph networks via concept-based explanations extracted from the latent representations obtained after…

Machine Learning · Computer Science 2026-04-23 Lucie Charlotte Magister , Pietro Lio

Knowledge graphs have been demonstrated to be an effective tool for numerous intelligent applications. However, a large amount of valuable knowledge still exists implicitly in the knowledge graphs. To enrich the existing knowledge graphs,…

Artificial Intelligence · Computer Science 2020-11-17 Pengpeng Shao , Guohua Yang , Dawei Zhang , Jianhua Tao , Feihu Che , Tong Liu

Recent advances in neural networks have solved common graph problems such as link prediction, node classification, node clustering, node recommendation by developing embeddings of entities and relations into vector spaces. Graph embeddings…

Social and Information Networks · Computer Science 2021-11-19 Archit Parnami , Mayuri Deshpande , Anant Kumar Mishra , Minwoo Lee

Graph Convolutional Networks (GCNs) have recently been shown to be quite successful in modeling graph-structured data. However, the primary focus has been on handling simple undirected graphs. Multi-relational graphs are a more general and…

Machine Learning · Computer Science 2020-01-22 Shikhar Vashishth , Soumya Sanyal , Vikram Nitin , Partha Talukdar

Knowledge graph learning plays a critical role in integrating domain specific knowledge bases when deploying machine learning and data mining models in practice. Existing methods on knowledge graph learning primarily focus on modeling the…

Computation and Language · Computer Science 2019-11-27 Bo Peng , Renqiang Min , Xia Ning

Message passing plays a vital role in graph neural networks (GNNs) for effective feature learning. However, the over-reliance on input topology diminishes the efficacy of message passing and restricts the ability of GNNs. Despite efforts to…

Machine Learning · Computer Science 2024-12-03 Junshu Sun , Chenxue Yang , Xiangyang Ji , Qingming Huang , Shuhui Wang
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