INTRODUCTION: The ambiguity of biomedical abbreviations is one of the challenges in biomedical text mining systems. In particular, the handling of term variants and abbreviations without nearby definitions is a critical issue. In this study, we adopt...
INTRODUCTION: This article explores how measures of semantic similarity and relatedness are impacted by the semantic groups to which the concepts they are measuring belong. Our goal is to determine if there are distinctions between homogeneous compar...
Journal of the American Medical Informatics Association : JAMIA
Aug 21, 2014
OBJECTIVE: The ShARe/CLEF eHealth 2013 Evaluation Lab Task 1 was organized to evaluate the state of the art on the clinical text in (i) disorder mention identification/recognition based on Unified Medical Language System (UMLS) definition (Task 1a) a...
Journal of the American Medical Informatics Association : JAMIA
Apr 1, 2025
OBJECTIVES: Large language models (LLMs) are increasingly utilized in healthcare, transforming medical practice through advanced language processing capabilities. However, the evaluation of LLMs predominantly relies on human qualitative assessment, w...
Journal of the American Medical Informatics Association : JAMIA
Sep 1, 2024
OBJECTIVES: Biomedical Knowledge Graphs play a pivotal role in various biomedical research domains. Concurrently, term clustering emerges as a crucial step in constructing these knowledge graphs, aiming to identify synonymous terms. Due to a lack of ...
Journal of the American Medical Informatics Association : JAMIA
Sep 1, 2024
OBJECTIVE: In this study, we investigate the potential of large language models (LLMs) to complement biomedical knowledge graphs in the training of semantic models for the biomedical and clinical domains.
Studies in health technology and informatics
Aug 22, 2024
Ontologies play a key role in representing and structuring domain knowledge. In the biomedical domain, the need for this type of representation is crucial for structuring, coding, and retrieving data. However, available ontologies do not encompass al...
Studies in health technology and informatics
Aug 22, 2024
This article presents our experience in development an ontological model can be used in clinical decision support systems (CDSS) creating. We have used the largest international biomedical terminological metathesaurus the Unified Medical Language Sys...
MOTIVATION: Biomedical entity linking (BEL) is the task of grounding entity mentions to a given knowledge base (KB). Recently, neural name-based methods, system identifying the most appropriate name in the KB for a given mention using neural network ...
Journal of the American Medical Informatics Association : JAMIA
Jun 20, 2024
OBJECTIVE: Social media-based public health research is crucial for epidemic surveillance, but most studies identify relevant corpora with keyword-matching. This study develops a system to streamline the process of curating colloquial medical diction...