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Biomedical knowledge graphs (KGs) hold rich information on entities such as diseases, drugs, and genes. Predicting missing links in these graphs can boost many important applications, such as drug design and repurposing. Recent work has…

Computation and Language · Computer Science 2021-09-22 Rahul Nadkarni , David Wadden , Iz Beltagy , Noah A. Smith , Hannaneh Hajishirzi , Tom Hope

We introduce an explainability method for biomedical hypothesis generation systems, built on top of the novel Hypothesis Generation Context Retriever framework. Our approach combines semantic graph-based retrieval and relevant…

Information Retrieval · Computer Science 2025-11-11 Ilya Tyagin , Saeideh Valipour , Aliaksandra Sikirzhytskaya , Michael Shtutman , Ilya Safro

Large Language Models (LLMs) are proficient at generating coherent and contextually relevant text but face challenges when addressing knowledge-intensive queries in domain-specific and factual question-answering tasks. Retrieval-augmented…

Information Retrieval · Computer Science 2024-10-08 Garima Agrawal , Tharindu Kumarage , Zeyad Alghamdi , Huan Liu

Large Language Models (LLMs) demonstrate strong reasoning abilities but face limitations such as hallucinations and outdated knowledge. Knowledge Graph (KG)-based Retrieval-Augmented Generation (RAG) addresses these issues by grounding LLM…

Computation and Language · Computer Science 2025-03-04 Mufei Li , Siqi Miao , Pan Li

Knowledge graphs have emerged as a popular method for injecting up-to-date, factual knowledge into large language models (LLMs). This is typically achieved by converting the knowledge graph into text that the LLM can process in context.…

Computation and Language · Computer Science 2025-04-10 Elan Markowitz , Krupa Galiya , Greg Ver Steeg , Aram Galstyan

Large language models (LLMs) are widely used, but they often generate subtle factual errors, especially in long-form text. These errors are fatal in some specialized domains such as medicine. Existing fact-checking with grounding documents…

Computation and Language · Computer Science 2025-05-29 Yingjian Chen , Haoran Liu , Yinhong Liu , Jinxiang Xie , Rui Yang , Han Yuan , Yanran Fu , Peng Yuan Zhou , Qingyu Chen , James Caverlee , Irene Li

Large Language Models (LLMs) have fundamentally transformed approaches to Natural Language Processing (NLP) tasks across diverse domains. In healthcare, accurate and cost-efficient text classification is crucial, whether for clinical notes…

Computation and Language · Computer Science 2026-02-16 Hajar Sakai , Sarah S. Lam

Rich and informative profiling to capture user preferences is essential for improving recommendation quality. However, there is still no consensus on how best to construct and utilize such profiles. To address this, we revisit recent…

Information Retrieval · Computer Science 2026-01-14 Seokho Ahn , Sungbok Shin , Young-Duk Seo

Europe's healthcare systems require enhanced interoperability and digitalization, driving a demand for innovative solutions to process legacy clinical data. This paper presents the results of our project, which aims to leverage Large…

Computation and Language · Computer Science 2025-07-09 Aynur Guluzade , Naguib Heiba , Zeyd Boukhers , Florim Hamiti , Jahid Hasan Polash , Yehya Mohamad , Carlos A Velasco

Large Language Models (LLMs) have demonstrated remarkable capabilities in natural language understanding and generation. However, they often struggle with complex reasoning tasks and are prone to hallucination. Recent research has shown…

Computation and Language · Computer Science 2024-12-17 Xue Wu , Kostas Tsioutsiouliklis

Current Large Language Models (LLMs) can assist developing program code beside many other things, but can they support working with Knowledge Graphs (KGs) as well? Which LLM is offering the best capabilities in the field of Semantic Web and…

Artificial Intelligence · Computer Science 2025-06-03 Lars-Peter Meyer , Johannes Frey , Desiree Heim , Felix Brei , Claus Stadler , Kurt Junghanns , Michael Martin

Document-level knowledge graph (KG) construction faces a fundamental scaling challenge: existing methods either rely on expensive large language models (LLMs), making them economically nonviable for large-scale corpora, or employ smaller…

Patient-trial matching requires reasoning over long, heterogeneous electronic health records (EHRs) and complex eligibility criteria, posing significant challenges for scalability, generalization, and computational efficiency. Existing…

Computation and Language · Computer Science 2026-04-27 Xiaodi Li , Yang Xiao , Munhwan Lee , Konstantinos Leventakos , Young J. Juhn , David Jones , Terence T. Sio , Wei Liu , Maria Vassilaki , Nansu Zong

A large-scale knowledge graph enhances reproducibility in biomedical data discovery by providing a standardized, integrated framework that ensures consistent interpretation across diverse datasets. It improves generalizability by connecting…

Methodology · Statistics 2024-10-11 Suqi Liu , Tianxi Cai , Xiaoou Li

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

Large Language Models (LLMs) have exhibited remarkable capabilities in clinical scenarios. Despite their potential, existing works face challenges when applying LLMs to medical settings. Strategies relying on training with medical datasets…

Computation and Language · Computer Science 2025-10-10 Keer Lu , Zheng Liang , Da Pan , Shusen Zhang , Guosheng Dong , Zhonghai Wu , Huang Leng , Bin Cui , Wentao Zhang

Given unstructured text, Large Language Models (LLMs) are adept at answering simple (single-hop) questions. However, as the complexity of the questions increase, the performance of LLMs degrade. We believe this is due to the overhead…

Computation and Language · Computer Science 2024-06-11 Pranoy Panda , Ankush Agarwal , Chaitanya Devaguptapu , Manohar Kaul , Prathosh A P

Integrating knowledge graphs (KGs) to enhance the reasoning capabilities of large language models (LLMs) is an emerging research challenge in claim verification. While KGs provide structured, semantically rich representations well-suited…

Computation and Language · Computer Science 2025-05-29 Hoang Pham , Thanh-Do Nguyen , Khac-Hoai Nam Bui

Integrating Large Language Models (LLMs) with Knowledge Graphs (KGs) results in complex systems with numerous hyperparameters that directly affect performance. While such systems are increasingly common in retrieval-augmented generation,…

Artificial Intelligence · Computer Science 2025-06-02 Vasilije Markovic , Lazar Obradovic , Laszlo Hajdu , Jovan Pavlovic

The proliferation of Large Language Models (LLMs) in medicine has enabled impressive capabilities, yet a critical gap remains in their ability to perform systematic, transparent, and verifiable reasoning, a cornerstone of clinical practice.…

Computation and Language · Computer Science 2025-08-04 Wenxuan Wang , Zizhan Ma , Meidan Ding , Shiyi Zheng , Shengyuan Liu , Jie Liu , Jiaming Ji , Wenting Chen , Xiang Li , Linlin Shen , Yixuan Yuan
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