The clinical manifestations of COVID-19 vary from mild or almost asymptomatic to severe ones that require intensive cares such as mechanical ventilation and ECMO in the ICU. In humans with such complex genetic or environmental factors, multi-layered omics networks on the viral and the host side are involved in the formation of various pathologies across all organs. Precision medicine, which provides appropriate medical cares to individual patients based on the omics information including genomic one, is a key to control COVID-19 in humans with diverse biological backgrounds. We construct the multi-layer omics data generation / analysis platform, in which time-series multi-layered omics data of the virus and host, which are linked to medical information, are stored. Those our generating and public data, could be useful for clarifying the complex biological network of COVID-19, and the prediction of disease progression, complications, and effects of interventions for individual patients.