COVID-19 Second Generation Surveillance System (COVIDSGSS) Dataset#
1. Summary#
| Dataset descriptor | Dataset-specific information |
|---|---|
| Name of dataset in TRE | COVIDSGSS |
| Other name | None |
| Temporal coverage | 06/04/2020 onwards |
| TRE temporal coverage | 06/04/2020 onwards |
| Keywords | COVID-19, Testing |
| Geographical coverage | England |
| Data resolution | Swab test |
| Specific restrictions to data use | Research must be related to COVID-19. For examples of research purposes acceptable to NHS England see the COVID-19 Public Health Directions 2020: https://digital.nhs.uk/about-nhs-digital/corporate-information-and-documents/directions-and-data-provision-notices/secretary-of-state-directions/covid-19-public-health-directions-2020 |
| Owner | NHS England |
| Short description | UK Health Security Agency’s (UKHSA) Second Generation Surveillance System (SGSS) is used to capture routine laboratory surveillance data on infectious diseases from diagnostic laboratories across England. This dataset comprises results from Pillar 1 swab (antigen) testing for SARS-CoV-2 (i.e. patients in hospital and NHS key workers) and Pillar 2 swab testing (i.e. the wider community at drive through test centres, walk in centres, home kits returned by post, care homes, etc.). A record represents one swab test. |
| Frequency of update | Annually |
| Key link | https://digital.nhs.uk/about-nhs-digital/corporate-information-and-documents/directions-and-data-provision-notices/data-provision-notices-dpns/sgss-and-sari-watch-data |
| Number of variables | 18 |
| Number of observations | 137223 |
| Participant count | 90523 |
| Date of last extract | 2024-04-26 |
2. Metrics#
The tables below summarise the COVIDSGSS dataset in the UK LLC TRE.
Table 1 The number of participants from each LPS that are represented in the COVIDSGSS dataset in the UK LLC TRE
(Note: numbers relate to the most recent extract of NHS England data)
| LPS | Participant count |
|---|---|
| ALSPAC | 2524 |
| BCS70 | 2205 |
| BIB | 9398 |
| ELSA | 1761 |
| EPICN | 2405 |
| EXCEED | 2945 |
| FENLAND | 3135 |
| GLAD | 31462 |
| MCS | 6770 |
| NCDS58 | 1691 |
| NEXTSTEP | 2077 |
| NIHRBIO_COPING | 7170 |
| NSHD46 | 404 |
| TEDS | 3479 |
| TRACKC19 | 6363 |
| TWINSUK | 4074 |
| UKHLS | 2660 |
| TOTAL | 90523 |
3. Helpful syntax#
Below we will include syntax that may be helpful to other researchers in the UK LLC TRE. For longer scripts, we will include a snippet of the code plus a link to Git where you can find the full script.