BeYond-COVID (BY-COVID) aims to provide comprehensive open data on SARS-CoV-2 and other infectious diseases across scientific, medical, public health and policy domains. It will strongly emphasise mobilising raw viral sequences, helping to identify and monitor the spread of SARS-CoV-2 variants. The project will further accelerate access to SARS-CoV-2 and COVID-19 and link patient and research data. To ensure interoperability of national and global efforts, BY-COVID will enable federated data analysis compliant with data protection regulations, harmonise and manage metadata and sample identifiers, and facilitate long-term cataloguing. BY-COVID will build on the One-Health approach, exploit and contribute to the European Open Science Cloud and work closely with the ISIDORe project funded through HORIZON Europe.