Related papers: PhenoKG: Knowledge Graph-Driven Gene Discovery and…

To date, there are no effective treatments for most neurodegenerative diseases. However, certain foods may be associated with these diseases and bring an opportunity to prevent or delay neurodegenerative progression. Our objective is to…

Predicting drug-gene associations is crucial for drug development and disease treatment. While graph neural networks (GNN) have shown effectiveness in this task, they face challenges with data sparsity and efficient contrastive learning…

Knowledge Graphs (KGs) have seen increasing use across various domains -- from biomedicine and linguistics to general knowledge modelling. In order to facilitate the analysis of knowledge graphs, Knowledge Graph Embeddings (KGEs) have been…

Large Language Models (LLMs) generate fluent answers but can struggle with trustworthy, domain-specific reasoning. We evaluate whether domain knowledge graphs (KGs) improve Retrieval-Augmented Generation (RAG) for healthcare by constructing…

Disease phenotyping algorithms process observational clinical data to identify patients with specific diseases. Supervised phenotyping methods require significant quantities of expert-labeled data, while unsupervised methods may learn…

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…

X-ray medical report generation is one of the important applications of artificial intelligence in healthcare. With the support of large foundation models, the quality of medical report generation has significantly improved. However,…

Knowledge Graphs (KG) constitute a flexible representation of complex relationships between entities particularly useful for biomedical data. These KG, however, are very sparse with many missing edges (facts) and the visualisation of the…

Federated graph learning (FGL) has emerged as a promising paradigm for collaborative graph representation learning, enabling multiple parties to jointly train models while preserving data privacy. However, most existing approaches assume…

Inferring causal relationships between variable pairs is crucial for understanding multivariate interactions in complex systems. Knowledge-based causal discovery -- which involves inferring causal relationships by reasoning over the…

Knowledge Graph has been proven effective in modeling structured information and conceptual knowledge, especially in the medical domain. However, the lack of high-quality annotated corpora remains a crucial problem for advancing the…

We present ASCENDgpt, a transformer-based model specifically designed for cardiovascular risk prediction from longitudinal electronic health records (EHRs). Our approach introduces a novel phenotype-aware tokenization scheme that maps…

Recently, Geometric Deep Learning (GDL) has been introduced as a novel and versatile framework for computer-aided disease classification. GDL uses patient meta-information such as age and gender to model patient cohort relations in a graph…

Discovering human cognitive and emotional states using multi-modal physiological signals draws attention across various research applications. Physiological responses of the human body are influenced by human cognition and commonly used to…

Discovering genes with similar functions across diverse biomedical contexts poses a significant challenge in gene representation learning due to data heterogeneity. In this study, we resolve this problem by introducing a novel model called…

Deep learning has brought significant progress to medical image classification, yet most existing methods still rely on isolated visual evidence and cannot effectively leverage similar cases or external knowledge. In clinical practice,…

Electronic health records (EHRs) enable strong clinical prediction, but explanations are often coarse and hard to use for patient-level decisions. We propose a knowledge graph (KG)-guided chain-of-thought (CoT) framework for visit-level…

Physiologically Based Pharmacokinetic (PBPK) modeling is a key tool in drug development for predicting drug concentration dynamics across organs. Traditional PBPK approaches rely on ordinary differential equations with simplifying…

Knowledge Graph (KG), as a side-information, tends to be utilized to supplement the collaborative filtering (CF) based recommendation model. By mapping items with the entities in KGs, prior studies mostly extract the knowledge information…

Objective: In modern healthcare, accurately predicting diseases is a crucial matter. This study introduces a novel approach using graph neural networks (GNNs) and a Graph Transformer (GT) to predict the incidence of heart failure (HF) on a…