Human infections caused by viral pathogens trigger a complex gamut of host responses that limit disease, resolve infection, generate immunity, and contribute to severe disease or death. Here, we present experimental methods and multi-omics data capture approaches representing the global host response to infection generated from 45 individual experiments involving human viruses from the Orthomyxoviridae, Filoviridae, Flaviviridae, and Coronaviridae families. Analogous experimental designs were implemented across human or mouse host model systems, longitudinal samples were collected over defined time courses, and global multi-omics data (transcriptomics, proteomics, metabolomics, and lipidomics) were acquired by microarray, RNA sequencing, or mass spectrometry analyses. For comparison, we have included transcriptomics datasets from cells treated with type I and type II human interferon. Raw multi-omics data and metadata were deposited in public repositories, and we provide a central location linking the raw data with experimental metadata and ready-to-use, quality-controlled, statistically processed multi-omics datasets not previously available in any public repository. This compendium of infection-induced host response data for reuse will be useful for those endeavouring to understand viral disease pathophysiology and network biology.

由病毒病原体引起的人类感染会引发一系列复杂的宿主反应，这些反应可以限制疾病、解决感染、产生免疫力，并导致严重疾病或死亡。在这里，我们提出了实验方法和多组学数据捕获方法，代表了全球宿主对感染的反应，这些反应是由 45 个单独的实验产生的，涉及来自正粘病毒科、丝状病毒科、黄病毒科和冠状病毒科的人类病毒。在人类或小鼠宿主模型系统中实施类似的实验设计，在规定的时间过程中收集纵向样本，并通过微阵列、RNA测序或质谱分析获取全局多组学数据（转录组学、蛋白质组学、代谢组学和脂质组学） 。为了进行比较，我们纳入了用 I 型和 II 型人干扰素处理的细胞的转录组学数据集。原始多组学数据和元数据存放在公共存储库中，我们提供了一个中心位置，将原始数据与实验元数据以及现成的、质量控制的、统计处理的多组学数据集链接起来，这些数据集以前在任何公共存储库中都不可用。这份可供重复使用的感染诱导宿主反应数据概要对于那些努力了解病毒性疾病病理生理学和网络生物学的人来说将是有用的。