Constructing a global human epidemic database using open-source digital biosurveillance

Here we present a subset of data from Ginkgo Biosecurity's Human Epidemic Database (HED), which consists of outbreak data collected from official, open-source surveillance reports. This provided dataset includes 1,044 epidemic events with onset between 2015 and 2020, covering more 230 countries and territories and 120 pathogens.

The methodology to collate these data have been described in a manuscript submitted for publication, ‘Constructing a global human epidemic database using open-source digital biosurveillance’.

Datasets included:
- HED_data repository.csv - Event-level data repository with epidemics starting in 2015 to 2020.
- HED_pathogens_supplement.csv - A list of pathogens and their associated grouping within our epidemic event scoring framework. This pathogen/grouping list is not comprehensive but rather a sampling of the pathogens scored.
- HED_metadata.csv - Meta data describing columns in ‘HED_complete data repository.csv’

本研究公开了来自银杏生物安全（Ginkgo Biosecurity）人类流行病数据库（Human Epidemic Database, HED）的子集数据，该数据集的原始信息均源自官方开源监测报告收集的疫情暴发数据。本次提供的数据集包含1044起发病时间介于2015年至2020年的疫情事件，覆盖全球230余个国家和地区以及120余种病原体。
本数据集的整理方法已在一篇已投稿的论文《基于开源数字生物监测构建全球人类流行病数据库》（"Constructing a global human epidemic database using open-source digital biosurveillance"）中详细阐述。
本次公开的数据集包含以下文件：
- HED_data repository.csv：事件级数据集，收录2015年至2020年暴发的各类疫情事件。
- HED_pathogens_supplement.csv：病原体及其在本研究疫情事件评分框架下的分组信息列表。该病原体/分组列表并非完整覆盖，仅为已完成评分的病原体抽样集合。
- HED_metadata.csv：用于说明"HED_complete data repository.csv"各列字段信息的元数据文件。