构建轻量级阿尔茨海默病临床试验准入标准本体,提升数据标准化与可分析性。
AD-CDO: A Lightweight Ontology for Representing Eligibility Criteria in Alzheimer's Disease Clinical Trials
- 从1500+试验中提取高频概念,按7类语义组织并标准化
- 实现超63%概念覆盖率,兼顾简洁性与临床实用性
- 适用于真实世界数据整合、虚拟试验模拟等场景
本研究提出阿尔茨海默病临床试验通用数据元素本体(AD-CDO),一种轻量级、语义丰富的本体,用于表示和标准化阿尔茨海默病(AD)临床试验中的关键准入标准。基于ClinicalTrials.gov上超过1500项AD临床试验,提取高频概念并划分为7个语义类别:疾病、药物、诊断测试、操作、健康社会决定因素、评分标准和生育相关。每个概念均使用标准生物医学词汇库(包括UMLS、OMOP标准词汇、DrugBank、NDC、NLM VSAC值集)进行标注。为平衡覆盖度与可管理性,采用Jenks自然断点法筛选代表性概念。优化后的AD-CDO在保持可读性和紧凑性的同时,实现了超过63%的提取概念覆盖率,有效捕获了最常见的临床有意义实体。通过两个应用案例验证其实际价值:(a) 基于本体的试验模拟系统,支持临床试验的形式化建模与虚拟执行;(b) 实体归一化任务,将原始临床文本映射为本体对齐术语,实现与电子健康记录(EHR)数据的一致性集成。结果表明,AD-CDO弥合了广泛生物医学本体与特定任务建模需求之间的差距,支持表型算法开发、队列识别和结构化数据整合等下游应用。通过统一核心准入实体并对其对齐标准化词汇,AD-CDO为基于本体的阿尔茨海默病临床研究提供了通用基础。
原文摘要 · Abstract (English)
Objective This study introduces the Alzheimer's Disease Common Data Element Ontology for Clinical Trials (AD-CDO), a lightweight, semantically enriched ontology designed to represent and standardize key eligibility criteria concepts in Alzheimer's disease (AD) clinical trials. Materials and Methods We extracted high-frequency concepts from more than 1,500 AD clinical trials on ClinicalTrials.gov and organized them into seven semantic categories: Disease, Medication, Diagnostic Test, Procedure, Social Determinants of Health, Rating Criteria, and Fertility. Each concept was annotated with standard biomedical vocabularies, including the UMLS, OMOP Standardized Vocabularies, DrugBank, NDC, and NLM VSAC value sets. To balance coverage and manageability, we applied the Jenks Natural Breaks method to identify an optimal set of representative concepts. Results The optimized AD-CDO achieved over 63% coverage of extracted trial concepts while maintaining interpretability and compactness. The ontology effectively captured the most frequent and clinically meaningful entities used in AD eligibility criteria. We demonstrated AD-CDO's practical utility through two use cases: (a) an ontology-driven trial simulation system for formal modeling and virtual execution of clinical trials, and (b) an entity normalization task mapping raw clinical text to ontology-aligned terms, enabling consistency and integration with EHR data. Discussion AD-CDO bridges the gap between broad biomedical ontologies and task-specific trial modeling needs. It supports multiple downstream applications, including phenotyping algorithm development, cohort identification, and structured data integration. Conclusion By harmonizing essential eligibility entities and aligning them with standardized vocabularies, AD-CDO provides a versatile foundation for ontology-driven AD clinical trial research.
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