Table 1. Epidemiological characteristics of care home and non-care home residents with COVID-19 included in the study.
The total sample set for this study comprised 6600 individuals. Of these, care home residency status could be established for 6413 (97.2%). 1167/6413 (18.2%) individuals were identified as being care home residents, of which 700/1167 (60.0%) had genomic data available that passed quality control filtering and were used for identifying care home clusters using the transcluster algorithm (described in Methods and main text). The subset of individuals (464/6600, 7.03%) that were tested at Cambridge University Hospitals (CUH) had richer metadata available and were used for analysing intensive care unit (ICU) admissions and 30 day mortality after first positive test, shown here. Not showing precise values where the number of cases is equal to or less than five individuals, to preserve patient anonymity. Ct = Cycle threshold; CUH = Cambridge University Hospitals; ICU = Intensive Care Unit; IQR = interquartile range.
| Variable | Care home residents (all) | Non-care home residents (all) | Care home residents with genomes |
|---|---|---|---|
| Number (%) | 1167/6413 (18.2%) | 5246/6413 (81.8%) | 700/1167 (60%) |
| Female (%) | 624/1167 (53.5%) | 2338/5246 (44.6%) | 363/700 (51.9%) |
| Male (%) | 543/1167 (46.5%) | 2908/5246 (55.4%) | 337/700 (48.1%) |
| Age in years (median, IQR, range) |
86 (IQR: 79–90, range: 30–100) | 65 (IQR: 48–80, range: 0–100) | 86 (IQR: 78–90, range: 42–99) |
| Diagnostic Ct value | 26 (IQR: 22–29) | 25 (IQR: 21–29) | 24 (IQR: 20–27) |
| Tested at CUH (%) | 72/464 (15.5%) | 392/464 (84.5%) | 54/72 (75%) |
| CUH patient admitted to ICU (%) | <5/72 (<7%) | 84/392 (21.4%) | <5/54 (<9%) |
| CUH patient 30 day mortality (%) | 34/72 (47.2%) | 78/392 (19.9%) | 23/54 (42.6%) |
| Number of care homes | 337 | - | 292 |
| Cases/ care home (median, IQR, range) | 2 (IQR: 1–5, range: 1–22) | - | 2 (IQR: 1–3, range: 1–18) |
| Care homes with > 5 cases | 85/337 (25.2%) | - | 32/292 (11%) |