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Knowledge graphs can represent information about the real-world using entities and their relations in a structured and semantically rich manner and they enable a variety of downstream applications such as question-answering, recommendation…

Computation and Language · Computer Science 2023-05-16 Hanieh Khorashadizadeh , Nandana Mihindukulasooriya , Sanju Tiwari , Jinghua Groppe , Sven Groppe

Knowledge graphs, collectively as a knowledge network, have become critical tools for knowledge discovery in computable and explainable knowledge systems. Due to the semantic and structural complexities of biomedical data, these knowledge…

Other Quantitative Biology · Quantitative Biology 2025-09-29 Chunlei Wu , Hongfang Liu , Jason Flannick , Mark A. Musen , Andrew I. Su , Lawrence Hunter , Thomas M. Powers , Cathy H. Wu

Artificial intelligence (AI) is reshaping modern healthcare by advancing disease diagnosis, treatment decision-making, and biomedical research. Among AI technologies, large language models (LLMs) have become especially impactful, enabling…

Artificial Intelligence · Computer Science 2025-11-18 Zhengda Wang , Daqian Shi , Jingyi Zhao , Xiaolei Diao , Xiongfeng Tang , Yanguo Qin

The use of knowledge graphs in recommender systems has become one of the common approaches to addressing data sparsity and cold start problems. Recent advances in large language models (LLMs) offer new possibilities for processing side and…

Information Retrieval · Computer Science 2025-02-13 Minhye Jeon , Seokho Ahn , Young-Duk Seo

With the rising incidence of some diseases, such as obesity and diabetes, a healthy diet is arousing increasing attention. However, most existing food-related research efforts focus on recipe retrieval, user preference-based food…

Information Retrieval · Computer Science 2021-04-20 Wenjie Wang , Ling-yu Duan , Hao Jiang , Peiguang Jing , Xuemeng Song , Liqiang Nie

The profound impact of food on health necessitates advanced nutrition-oriented food recommendation services. Conventional methods often lack the crucial elements of personalization, explainability, and interactivity. While Large Language…

Information Retrieval · Computer Science 2024-09-26 Zhongqi Yang , Elahe Khatibi , Nitish Nagesh , Mahyar Abbasian , Iman Azimi , Ramesh Jain , Amir M. Rahmani

Industrial analytics that includes among others equipment diagnosis and anomaly detection heavily relies on integration of heterogeneous production data. Knowledge Graphs (KGs) as the data format and ontologies as the unified data schemata…

Pain is a complex concept that can interconnect with other concepts such as a disorder that might cause pain, a medication that might relieve pain, and so on. To fully understand the context of pain experienced by either an individual or…

Machine Learning · Computer Science 2023-08-21 Jaya Chaturvedi , Tao Wang , Sumithra Velupillai , Robert Stewart , Angus Roberts

We propose a novel framework to facilitate the on-demand design of data-centric systems by exploiting domain knowledge from an existing ontology. Its key ingredient is a process that we call focusing, which allows to obtain a schema for a…

Logic in Computer Science · Computer Science 2019-04-02 Tomasz Gogacz , Víctor Gutiérrez-Basulto , Yazmín A. Ibáñez-García , Filip Murlak , Magdalena Ortiz , Mantas Šimkus

Neuroscience research publications encompass a vast wealth of knowledge. Accurately retrieving existing information and discovering new insights from this extensive literature is essential for advancing the field. However, when knowledge is…

Computation and Language · Computer Science 2025-10-28 Pralaypati Ta , Sriram Venkatesaperumal , Keerthi Ram , Mohanasankar Sivaprakasam

We are developing infrastructure to support researchers in mapping data related to the peripheral nervous system and other physiological systems, with an emphasis on their relevance to the organs under investigation. The nervous system, a…

Artificial Intelligence · Computer Science 2025-09-22 Natallia Kokash , Bernard de Bono , Tom Gillespie

Because of the increasing number of electronic data, designing efficient tools to retrieve and exploit documents is a major challenge. Current search engines suffer from two main drawbacks: there is limited interaction with the list of…

Information Retrieval · Computer Science 2010-12-09 Sylvie Ranwez , Vincent Ranwez , Mohameth-François Sy , Jacky Montmain , Michel Crampes

Tools to explore scientific literature are essential for scientists, especially in biomedicine, where about a million new papers are published every year. Many such tools provide users the ability to search for specific entities (e.g.…

Computation and Language · Computer Science 2021-07-05 Sunil Mohan , Rico Angell , Nick Monath , Andrew McCallum

Blogs and social networking sites serve as a platform to the users for expressing their interests, ideas and thoughts. Targeted marketing uses the recommendation systems for suggesting their services and products to the users or clients. So…

Software Engineering · Computer Science 2024-08-09 Usama Ahmed Jamal

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

Knowledge graphs have become the primary vehicle for data integration and are critical to the success of modern AI, but the diversity of KG modelling practices, from lightweight vocabularies to richly axiomatised ontologies, makes…

Artificial Intelligence · Computer Science 2026-05-26 Enrico Daga , Valentina Tamma , Terry Payne

Large language models (LLMs) offer new opportunities for constructing knowledge graphs (KGs) from unstructured clinical narratives. However, existing approaches often rely on structured inputs and lack robust validation of factual accuracy…

Artificial Intelligence · Computer Science 2026-01-06 Udiptaman Das , Krishnasai B. Atmakuri , Duy Ho , Chi Lee , Yugyung Lee

Ontology-based knowledge graphs (KG) are desirable for effective knowledge management and reuse in various decision making scenarios, including design. Creating and populating extensive KG based on specific ontological models can be highly…

Although the goal of achieving semantic interoperability of electronic health records (EHRs) is pursued by many researchers, it has not been accomplished yet. In this paper, we present a proposal that smoothes out the way toward the…

Artificial Intelligence · Computer Science 2024-01-23 Idoia Berges , Jesús Bermúdez , Arantza Illarramendi

Pharmacovigilance and clinical decision support systems utilize structured drug safety data to guide medical practice. However, existing datasets frequently depend on terminologies such as MedDRA, which limits their semantic reasoning…

Information Retrieval · Computer Science 2026-02-24 Mohammad Ashhad , Olga Mashkova , Ricardo Henao , Robert Hoehndorf