Public Health England's (PHE) Second Generation Surveillance System is a centralized microbiology database covering English clinical diagnostics laboratories that provides national surveillance of legally notifiable infections, bacterial isolations and antimicrobial resistance.

This document (by Armstrong et.al) describes a dynamic linkage which enabled PHE to provide a regular feed of new COVID-19 (SARS-CoV-2) test results to UKBiobank to facilitate rapid and urgent research into the epidemiological and human genetic risk factors for severe infection in the cohort. It characterizes the first 1352 cases of COVID-19 in UKB participants, of whom 895 met PHEs working definition of severe COVID-19 as inpatients hospitalized on or after 16 March 2020.

This resource can be downloaded or viewed using the link: c19link_phe_sgss.pdf

If you have wget available (typically on linux systems), then you can also obtain a copy using the command

 wget  -nd  biobank.ndph.ox.ac.uk/ukb/ukb/docs/c19link_phe_sgss.pdf