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Electronic Health Records (EHRs) and routine documentation practices play a vital role in patients' daily care, providing a holistic record of health, diagnoses, and treatment. However, complex and verbose EHR narratives overload healthcare…

Most existing knowledge graphs suffer from incompleteness. Embedding knowledge graphs into continuous vector spaces has recently attracted increasing interest in knowledge base completion. However, in most existing embedding methods, only…

Knowledge graph completion aims to predict the new links in given entities among the knowledge graph (KG). Most mainstream embedding methods focus on fact triplets contained in the given KG, however, ignoring the rich background information…

Entity Resolution (ER) is a constitutional part for integrating different knowledge graphs in order to identify entities referring to the same real-world object. A promising approach is the use of graph embeddings for ER in order to…

Knowledge Graph Retrieval-Augmented Generation (KG-RAG) extends the RAG paradigm by incorporating structured knowledge from knowledge graphs, enabling Large Language Models (LLMs) to perform more precise and explainable reasoning. While…

Recent advancements in large language models (LLMs) have achieved promising performances across various applications. Nonetheless, the ongoing challenge of integrating long-tail knowledge continues to impede the seamless adoption of LLMs in…

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…

Drug discovery and development is a complex and costly process. Machine learning approaches are being investigated to help improve the effectiveness and speed of multiple stages of the drug discovery pipeline. Of these, those that use…

Drug repositioning-a promising strategy for discovering new therapeutic uses for existing drugs-has been increasingly explored in the computational science literature using biomedical databases. However, the technological potential of drug…

Knowledge graphs (KGs), as structured representations of real world facts, are intelligent databases incorporating human knowledge that can help machine imitate the way of human problem solving. However, KGs are usually huge and there are…

The reasoning process of Large Language Models (LLMs) is often plagued by hallucinations and missing facts in question-answering tasks. A promising solution is to ground LLMs' answers in verifiable knowledge sources, such as Knowledge…

Knowledge graph reasoning (KGR) infers missing facts, with recent advances increasingly harnessing the semantic priors and reasoning abilities of Large Language Models (LLMs). However, prevailing generative paradigms are prone to memorizing…

Knowledge Graphs (KGs), representing facts as triples, have been widely adopted in many applications. Reasoning tasks such as link prediction and rule induction are important for the development of KGs. Knowledge Graph Embeddings (KGEs)…

Injecting textual information into knowledge graph (KG) entity representations has been a worthwhile expedition in terms of improving performance in KG oriented tasks within the NLP community. External knowledge often adopted to enhance KG…

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…

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…

We study the problem of learning to reason in large scale knowledge graphs (KGs). More specifically, we describe a novel reinforcement learning framework for learning multi-hop relational paths: we use a policy-based agent with continuous…

Current medical retrieval-augmented generation (RAG) approaches overlook evidence-based medicine (EBM) principles, leading to two key gaps: (1) the lack of PICO alignment between queries and retrieved evidence, and (2) the absence of…

The causal relationships between biomarkers are essential for disease diagnosis and medical treatment planning. One notable application is Alzheimer's disease (AD) diagnosis, where certain biomarkers may influence the presence of others,…

Background: Alzheimer's disease and related dementias (ADRD) ranks as the sixth leading cause of death in the US, underlining the importance of accurate ADRD risk prediction. While recent advancement in ADRD risk prediction have primarily…