Dynamic linkage of COVID-19 test results between Public Health England's Second Generation Surveillance System and UK Biobank
Dynamic linkage of COVID-19 test results between Public Health England's Second Generation Surveillance System and UK Biobank
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DOI：
10.1099/mgen.0.000397
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发表时间：
2020-07-01
影响因子：
3.9
通讯作者：
O'Connell, Anne Marie
中科院分区：
文献类型：
--
作者：
Armstrong, Jacob;Rudkin, Justine K.;O'Connell, Anne Marie
英国生物银行（UKB）是一个国际卫生资源，可用于研究中老年常见疾病的遗传和生活方式决定因素。它包括50万参与者。英国公共卫生部的第二代监测系统是一个集中的微生物数据库，涵盖英国临床诊断实验室，提供法定感染、细菌分离和抗菌素耐药性的国家监测。我们以前开发了安全的，假名的，个人层面的这些系统的链接。在这项研究中，我们实施了快速动态链接，这使我们能够定期向UKB提供新的COVID-19 （SARS-CoV-2）检测结果，以便快速和紧急地研究队列中严重感染的流行病学和人类遗传危险因素。在这里，我们对UKB参与者中的首批1352例COVID-19病例进行了描述，其中895例符合我们对严重COVID-19的工作定义，即在2020年3月16日或之后住院的住院患者。我们发现，UKB病例中严重COVID-19的发病率比英格兰普通人群低27.4%，尽管这种差异因年龄和性别而有很大差异。英国结核病例总数估计为英格兰公开宣布病例数的0.6%。我们考虑了增加病例数将如何影响全基因组关联研究的能力。这种新的动态链接系统具有进一步的潜力，可以促进其他感染的调查和微生物培养物的前瞻性收集，以创建一个微生物生物库（bugbank），用于研究环境，人类和微生物遗传学在UKB队列感染中的相互作用。
UK Biobank (UKB) is an international health resource enabling research into the genetic and lifestyle determinants of common diseases of middle and older age. It comprises 500 000 participants. Public Health England's Second Generation Surveillance System is a centralized microbiology database covering English clinical diagnostics laboratories that provides national surveillance of legally notifiable infections, bacterial isolations and antimicrobial resistance. We previously developed secure, pseudonymized, individual-level linkage of these systems. In this study, we implemented rapid dynamic linkage, which allows us to provide a regular feed of new COVID-19 (SARS-CoV-2) test results to UKB to facilitate rapid and urgent research into the epidemiological and human genetic risk factors for severe infection in the cohort. Here, we have characterized the first 1352 cases of COVID-19 in UKB participants, of whom 895 met our working definition of severe COVID-19 as inpatients hospitalized on or after 16 March 2020. We found that the incidence of severe COVID-19 among UKB cases was 27.4 % lower than the general population in England, although this difference varied significantly by age and sex. The total number of UKB cases could be estimated as 0.6% of the publicly announced number of cases in England. We considered how increasing case numbers will affect the power of genome-wide association studies. This new dynamic linkage system has further potential to facilitate the investigation of other infections and the prospective collection of microbiological cultures to create a microbiological biobank (bugbank) for studying the interaction of environment, human and microbial genetics on infection in the UKB cohort.