COVID-19 Surveillance in a Primary Care Sentinel Network: In-Pandemic Development of an Application Ontology.
COVID-19 Surveillance in a Primary Care Sentinel Network: In-Pandemic Development of an Application Ontology.
复制标题
DOI：
10.2196/21434
复制
发表时间：
2020-11-17
影响因子：
8.5
通讯作者：
Hobbs FDR
中科院分区：
文献类型：
--
作者：
de Lusignan S;Liyanage H;McGagh D;Jani BD;Bauwens J;Byford R;Evans D;Fahey T;Greenhalgh T;Jones N;Mair FS;Okusi C;Parimalanathan V;Pell JP;Sherlock J;Tamburis O;Tripathy M;Ferreira F;Williams J;Hobbs FDR
为COVID-19监测创建本体应有助于确保透明度和一致性。本体在领域或应用程序级别上对概念化进行形式化。应用程序本体跨领域，并通过可测试的用例指定。我们的用例是牛津皇家全科医师学院（RCGP）研究和监测中心（RSC）的角色的延伸，以监测当前的大流行，并成为大流行研究平台。本研究旨在为COVID-19开发一个应用本体，该本体可以部署在RCGP RSC研究和监测活动的各个用例领域。我们描述了特定于域的用例。行动者是RCGP RSC哨兵网络，系统是COVID-19大流行的过程，结果是缓解措施的传播和效果。我们使用我们建立的3步方法来开发本体，将本体概念开发与代码映射和数据提取验证分离。我们开发了一种独立于编码系统的COVID-19病例识别算法。由于没有黄金标准的流行病监测本体，我们通过国际医学信息学协会初级卫生保健信息学工作组和扩展网络进行了快速的德尔菲共识练习。我们的用例领域包括初级保健、公共卫生、病毒学、临床研究和临床信息学。我们的本体支持（1）病例识别，微生物采样和个人实践和国家层面的健康结果;（2）通过仪表板反馈;（3）国家观察站;（4）定期更新英格兰公共卫生;（5）将哨兵网络转化为试验平台。在RCGP RSC网络中，我们共确定了19，115名具有明确COVID-19状态的人，5226例可能病例和74，293名可能的COVID-19患者（N= 5，370，225）。我们的本体论方法的基础结构已经应对了多种临床编码挑战。在国际比较存在不确定性的时候，必须明确根据常规数据作出病例定义和结果的依据。
Creating an ontology for COVID-19 surveillance should help ensure transparency and consistency. Ontologies formalize conceptualizations at either the domain or application level. Application ontologies cross domains and are specified through testable use cases. Our use case was an extension of the role of the Oxford Royal College of General Practitioners (RCGP) Research and Surveillance Centre (RSC) to monitor the current pandemic and become an in-pandemic research platform. This study aimed to develop an application ontology for COVID-19 that can be deployed across the various use-case domains of the RCGP RSC research and surveillance activities. We described our domain-specific use case. The actor was the RCGP RSC sentinel network, the system was the course of the COVID-19 pandemic, and the outcomes were the spread and effect of mitigation measures. We used our established 3-step method to develop the ontology, separating ontological concept development from code mapping and data extract validation. We developed a coding system–independent COVID-19 case identification algorithm. As there were no gold-standard pandemic surveillance ontologies, we conducted a rapid Delphi consensus exercise through the International Medical Informatics Association Primary Health Care Informatics working group and extended networks. Our use-case domains included primary care, public health, virology, clinical research, and clinical informatics. Our ontology supported (1) case identification, microbiological sampling, and health outcomes at an individual practice and at the national level; (2) feedback through a dashboard; (3) a national observatory; (4) regular updates for Public Health England; and (5) transformation of a sentinel network into a trial platform. We have identified a total of 19,115 people with a definite COVID-19 status, 5226 probable cases, and 74,293 people with possible COVID-19, within the RCGP RSC network (N=5,370,225). The underpinning structure of our ontological approach has coped with multiple clinical coding challenges. At a time when there is uncertainty about international comparisons, clarity about the basis on which case definitions and outcomes are made from routine data is essential.
登录
查看更多内容
影响因子：
2.9
作者：
Correa A;Hinton W;McGovern A;van Vlymen J;Yonova I;Jones S;de Lusignan S
通讯作者：
de Lusignan S
DOI：
10.1093/bioinformatics/btn534
发表时间：
2008-12-15
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Collier N;Doan S;Kawazoe A;Goodwin RM;Conway M;Tateno Y;Ngo QH;Dien D;Kawtrakul A;Takeuchi K;Shigematsu M;Taniguchi K
通讯作者：
Taniguchi K
影响因子：
8.5
作者：
de Lusignan, Simon;Bernal, Jamie Lopez;Hobbs, Richard
通讯作者：
Hobbs, Richard
影响因子：
8.5
作者：
de Lusignan, Simon;Jones, Nicholas;Hobbs, Richard
通讯作者：
Hobbs, Richard
影响因子：
6.4
作者：
Freifeld, Clark C.;Mandl, Kenneth D.;Ras, Ben Y.;Bronwnstein, John S.
通讯作者：
Bronwnstein, John S.