A Call for Action: Lessons Learned From a Pilot to Share a Complex, Linked COVID-19 Cohort Dataset for Open Science.

IF 3.5 2区 医学 Q1 PUBLIC, ENVIRONMENTAL & OCCUPATIONAL HEALTH
Clara Amid, Martine Y van Roode, Gabriele Rinck, Janko van Beek, Rory D de Vries, Gijsbert P van Nierop, Eric C M van Gorp, Frank Tobian, Bas B Oude Munnink, Reina S Sikkema, Thomas Jaenisch, Guy Cochrane, Marion P G Koopmans
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引用次数: 0

Abstract

Unlabelled: The COVID-19 pandemic proved how sharing of genomic sequences in a timely manner, as well as early detection and surveillance of variants and characterization of their clinical impacts, helped to inform public health responses. However, the area of (re)emerging infectious diseases and our global connectivity require interdisciplinary collaborations to happen at local, national and international levels and connecting data to understand the linkages between all factors involved. Here, we describe experiences and lessons learned from a COVID-19 pilot study aimed at developing a model for storage and sharing linked laboratory data and clinical-epidemiological data using European open science infrastructure. We provide insights into the barriers and complexities of internationally sharing linked, complex cohort datasets from opportunistic studies for connected data analyses. An analytical timeline of events, describing key actions and delays in the execution of the pilot, and a critical path, defining steps in the process of internationally sharing a linked cohort dataset are included. The pilot showed how building on existing infrastructure that had previously been developed within the European Nucleotide Archive at the European Molecular Biology Laboratory-European Bioinformatics Institute for pathogen genomics data sharing, allowed the rapid development of connected "data hubs." These data hubs were required to link human clinical-epidemiological data under controlled access with open high dimensional laboratory data, under FAIR (Findable, Accessible, Interoperable, Reusable) principles. Based on our own experiences, we call for action and make recommendations to support and to improve data sharing for outbreak preparedness and response.

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来源期刊
CiteScore
13.70
自引率
2.40%
发文量
136
审稿时长
12 weeks
期刊介绍: JMIR Public Health & Surveillance (JPHS) is a renowned scholarly journal indexed on PubMed. It follows a rigorous peer-review process and covers a wide range of disciplines. The journal distinguishes itself by its unique focus on the intersection of technology and innovation in the field of public health. JPHS delves into diverse topics such as public health informatics, surveillance systems, rapid reports, participatory epidemiology, infodemiology, infoveillance, digital disease detection, digital epidemiology, electronic public health interventions, mass media and social media campaigns, health communication, and emerging population health analysis systems and tools.
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