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OpenSAFELY: factors associated with COVID-19-related hospital death in the linked electronic health records of 17 million adult NHS patients
Open accessPreprint — published as 10.1038/s41586-020-2521-4 · Paper page
Abstract
Background: Establishing who is at risk from a novel rapidly arising cause of death, and why, requires a new approach to epidemiological research with very large datasets and timely data. Working on behalf of NHS England we therefore set out to deliver a secure and pseudonymised analytics platform inside the data centre of a major primary care electronic health records vendor establishing coverage across detailed primary care records for a substantial proportion of all patients in England. The following results are preliminary. Data sources: Primary care electronic health records managed by the electronic health record vendor TPP, pseudonymously linked to patient-level data from the COVID-19 Patient Notification System (CPNS) for death of hospital inpatients with confirmed COVID-19, using the new OpenSAFELY platform. Population: 17,425,445 adults. Time period: 1st Feb 2020 to 25th April 2020. Primary outcome: Death in hospital among people with confirmed COVID-19. Methods: Cohort study analysed by Cox-regression to generate hazard ratios: age and sex adjusted, and multiply adjusted for co-variates selected prospectively on the basis of clinical interest and prior findings. Results: There were 5683 deaths attributed to COVID-19. In summary after full adjustment, death from COVID-19 was strongly associated with: being male (hazard ratio 1.99, 95%CI 1.88-2.10); older age and deprivation (both with a strong gradient); uncontrolled diabetes (HR 2.36 95% CI 2.18-2.56); severe asthma (HR 1.25 CI 1.08-1.44); and various other prior medical conditions. Compared to people with ethnicity recorded as white, black people were at higher risk of death, with only partial attenuation in hazard ratios from the fully adjusted model (age-sex adjusted HR 2.17 95% CI 1.84-2.57; fully adjusted HR 1.71 95% CI 1.44-2.02); with similar findings for Asian people (age-sex adjusted HR 1.95 95% CI 1.73-2.18; fully adjusted HR 1.62 95% CI 1.431.82). Conclusions: We have quantified a range of clinical risk factors for death from COVID-19, some of which were not previously well characterised, in the largest cohort study conducted by any country to date. People from Asian and black groups are at markedly increased risk of in-hospital death from COVID-19, and contrary to some prior speculation this is only partially attributable to pre-existing clinical risk factors or deprivation; further research into the drivers of this association is therefore urgently required. Deprivation is also a major risk factor with, again, little of the excess risk explained by co-morbidity or other risk factors. The findings for clinical risk factors are concordant with policies in the UK for protecting those at highest risk. Our OpenSAFELY platform is rapidly adding further NHS patients’ records; we will update and extend these results regularly.
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“However, most associations observed between baseline characteristics and mortality or intubation are in line with prior epidemiological studies [17,19].”
From Association between antidepressant use and reduced risk of intubation or death in hospitalized patients with COVID-19: results from an observational study (2021) · cites this paper as [17]
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“[10] Williamson E, Walker AJ, bhaskaran k, et al.”
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Jain, V., Clarke, J., & Beaney, T. E. (2022) · Journal of Epidemiology & Community Health · doi:10.1136/jech-2022-218920 · Cited by 36
Risk factors for hospital admission among COVID-19 patients with diabetes
Hayek, A. A., Robert, A. A., Matar, A., Algarni, A., Alkubedan, H., Alharbi, T., Amro, A. A., Alrashidi, S. A., & Dawish, M. A. A. (2020) · Saudi Medical Journal · doi:10.15537/smj.2020.10.25419 · Cited by 32
Alam, S., O’Halloran, S., & Fowke, A. (2024) · The Cognitive Behaviour Therapist · doi:10.1017/s1754470x24000084 · Cited by 26
“Racially-minoritised (non-White) people have been disproportionately affected by COVID-19, with an increased risk of dying from the virus (Williamson et al ., 2020).”
BackgroundEthics of selective restriction of liberty in a pandemic
Cameron, J., Williams, B. M., Ragonnet, R. R., Marais, B. J., Trauer, J. M., & Savulescu, J. (2021) · Journal of Medical Ethics · doi:10.1136/medethics-2020-107104 · Cited by 32
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Thinking Beyond the Lockdown: On the Possibility of a Democratic Biopolitics
Sotiris, P. (2020) · Historical Materialism · doi:10.1163/1569206x-12342803 · Cited by 32
“…of severe covid-19 disease, is well-documented as being socially determined.23 We can add to this further socially-determined aspects of the pandemic: the increased danger and exposure in contemporary work-spaces, especially for 18 Office for National Statistics 2020b. 19 Williamson et al. 2020.”
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The COVID-19 Pandemic: Lessons for Financially Fragile and Aging Societies
van Dalen, H. P., & Henkens, K. (2020) · Work Aging and Retirement · doi:10.1093/workar/waaa011 · Cited by 27
“It has been clear that people who are obese and who also face complications such as diabetes and hypertension are more likely to become seriously ill and have a higher mortality risk if they are infected with the COVID-19 virus (Finer, Garnett, & Bruun, 2020; Williamson et al., 2020).”
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Self-citationA vulnerability index for COVID-19: spatial analysis to inform equitable response in Kenya
Macharia, P., Joseph, N. K., & Okiro, E. (2020) · medRxiv · doi:10.1101/2020.05.27.20113803 · Cited by 21
“…the coronavirus disease 2019 (COVID-19) in the United States and the United Kingdom where Black, Asian and minority ethnic communities are being disproportionately affected [5 – 7] as are poorer communities [8,9] ; during the Ebola outbreak the disease was linked to rural and remote areas [10] .”
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Lycopene: a therapeutic strategy against coronavirus disease 19 (COVID- 19)
Khongthaw, B., Dulta, K., Chauhan, P. K., Kumar, V., & Ighalo, J. O. (2022) · Inflammopharmacology · doi:10.1007/s10787-022-01061-4 · Cited by 29
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Evaluating the Impact of the COVID-19 Pandemic on New Cancer Diagnoses and Oncology Care in Manitoba
Decker, K., Lambert, P. J., Feely, A., Bucher, O., Kim, J. O., Hebbard, P. C., Thiessen, M. H., Fatoye, T., Pitz, M. W., Koul, R., et al. (2021) · Current Oncology · doi:10.3390/curroncol28040269 · Cited by 22
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A multi-institutional assessment of COVID-19-related risk in radiation oncology
Viscariello, N., Evans, S., Parker, S., et al. (2020) · Radiotherapy and Oncology · doi:10.1016/j.radonc.2020.10.013 · Cited by 20
“Given that cancer patients appear to be at increased risk for contracting COVID [4] and for experiencing negative outcomes from the disease [2], it is important to control the clinical environment in such a way as to reduce nosocomial viral transmission and”
BackgroundSelf-citationSARS-CoV-2 and Obesity: “CoVesity”—a Pandemic Within a Pandemic
Zakka, K. R., Chidambaram, S., Mansour, S., Mahawar, K. K., Salminen, P. T. P., Almino, R., Schauer, P. R., Kinross, J. K., Purkayastha, S., & Collaborative, O. B. O. T. P. (2021) · Obesity Surgery · doi:10.1007/s11695-020-04919-0 · Cited by 27
“We have recognized that obesity is a risk factor for poor outcomes in COVID–19 infection(28, 51).”
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“Underlying health conditions are more frequent among socioeconomically disadvantaged groups, thus, leading to increased risk of infections and severe health outcomes (26, 27).”
BackgroundPrediction of Non-canonical Routes for SARS-CoV-2 Infection in Human Placenta Cells
Constantino, F. B., Cury, S. S., Nogueira, C. R., Carvalho, R. F., & Justulin, L. A. (2021) · Frontiers in Molecular Biosciences · doi:10.3389/fmolb.2021.614728 · Cited by 33
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“5% or higher has been associated with increased in-hospital mortality within COVID-19 patients [32].”
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“Risk factors for developing symptomatic Covid-19 and severe respiratory distress syndrome include age above 70 years and, in addition, a medical condition such as diabetes, chronic respiratory disease, cardiovascular and kidney disease, impaired immune system, obesity, and neuromuscular disease [3].”
BackgroundEthics of kidney care in the era of COVID-19
Martin, D., Parsons, J. A., Caskey, F. J., Harris, D. C. H., & Jha, V. (2020) · Kidney International · doi:10.1016/j.kint.2020.09.014 · Cited by 21
“In settings where access to care was already difficult, the disruption of COVID19 has proven catastrophic for some patients.5 COVID-19 infection is associated with the development of nephropathy and acute kidney injury (AKI), increasing demand for dialysis during surge periods.6–10 Kidney transplant patients are more…”
InfluentialZahra, W., Dixon, J. W., Mirtorabi, N., Rolton, D. J., Tayton, E. R., Hale, P., Fisher, W. J., Barnes, R. J., Tunstill, S. A., Iyer, S., et al. (2020) · Bone & Joint Open · doi:10.1302/2633-1462.18.bjo-2020-0105.r1 · Cited by 20
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COVID-19 in patients with rheumatic diseases: what is the real mortality risk?
Marques, C., Pinheiro, M., Reis, E., et al. (2020) · Annals of the Rheumatic Diseases · doi:10.1136/annrheumdis-2020-218388 · Cited by 19
SARS-CoV-2/COVID-19: a primer for cardiologists
de Vries, A. A. F. (2020) · Netherlands Heart Journal · doi:10.1007/s12471-020-01475-1 · Cited by 22
Beyond dexamethasone, emerging immuno‐thrombotic therapies for COVID‐19
Jensen, M. P., George, M., Gilroy, D., & Sofat, R. (2021) · British Journal of Clinical Pharmacology · doi:10.1111/bcp.14540 · Cited by 17
“The effect appears to be only partially attributable to pre-existing clinical risk factors and deprivation.(145,146) Interest has also focussed on ethnic differences in the expression of ACE2, with a preliminary report noting significantly higher ACE2 expression in East Asian individuals compared to other ethnic group…”
BackgroundShah, A., Subramanian, A., Lewis, J., Dhalla, S., Ford, E., Haroon, S., Kuan, V., & Nirantharakumar, K. (2023) · medRxiv · doi:10.1101/2023.01.06.23284202 · Cited by 19
COVID-19 and Ethnic Inequalities in England
Platt, L. (2021) · LSE Public Policy Review · doi:10.31389/lseppr.33 · Cited by 18
“Racial inequalities in COVID-19 hospitalisations and deaths have been documented in the US [6], Canada [7], as well as the UK, where there is extensive and ongoing research on the experience of ethnic minorities [3, 4, 8, 9, 10].”
BackgroundFrager, S. Z., Szymanski, J. M., Schwartz, J. M., Massoumi, H., Kinkhabwala, M. M., & Wolkoff, A. W. (2020) · Hepatology Communications · doi:10.1002/hep4.1648 · Cited by 19
Telomere length, epidemiology and pathogenesis of severe COVID‐19
Tsilingiris, D., Tentolouris, A., Eleftheriadou, I., & Tentolouris, N. (2020) · European Journal of Clinical Investigation · doi:10.1111/eci.13376 · Cited by 23
Metadata
- Authors
- Collaborative, T. O., Williamson, E., Walker, A. J., Bhaskaran, K., Bacon, S., Bates, C., Morton, C. E., Curtis, H. J., Mehrkar, A., Evans, D., Inglesby, P., Cockburn, J., McDonald, H. I., MacKenna, B., Tomlinson, L., Douglas, I. J., Rentsch, C. T., Mathur, R., Wong, A., Grieve, R., Harrison, D., Forbes, H., Schultze, A., Croker, R., Parry, J., Hester, F., Harper, S., Perera, R., Evans, S., Smeeth, L., & Goldacre, B.
- Affiliations
- London School of Hygiene & Tropical Medicine (GB)
- University of Oxford (GB)
- National Institute for Health and Care Research (GB)
- Corresponding author
- Goldacre, Ben
- ORCID
- Williamson, Elizabeth
- Walker, Alex J
- Bhaskaran, Krishnan
- Bacon, Seb
- Morton, Caroline E
- Curtis, Helen J
- Inglesby, Peter
- Cockburn, Jonathan
- McDonald, Helen I
- MacKenna, Brian
- Tomlinson, Laurie
- Douglas, Ian J
- Rentsch, Christopher T
- Mathur, Rohini
- Wong, Angel
- Grieve, Richard
- Harrison, David
- Schultze, Anna
- Croker, Richard
- Hester, Frank
- Perera, Raf
- Evans, Stephen
- Smeeth, Liam
- Goldacre, Ben
- Venue
- Nature
- Publisher
- openRxiv
- Published
- 2020-05-07
- Volume
- 584
- Issue
- 7821
- Pages
- 430-436
- ISSN
- 0028-0836 (ISSN-L)
- PMC
- PMC7611074
- OpenAlex
- W3047144258
- Cited by
- 6,674
- References
- 32
- Citations by year
- 2026: 176 · 2025: 303 · 2024: 698 · 2023: 904 · 2022: 1505 · 2021: 2173 · 2020: 908
- FWCI
- 179.94
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- Nature (publishedVersion)
- medRxiv (acceptedVersion, cc-by)
- PubMed (publishedVersion)
- LSHTM Research Online (London School of Hygiene and Tropical Medicine) (acceptedVersion)
- PubMed Central (acceptedVersion, cc-by)
- RePEc: Research Papers in Economics (submittedVersion)
- Queen Mary Research Online (Queen Mary University of London) (submittedVersion)
- Funders
- London School of Hygiene and Tropical Medicine
- Wellcome Trust (107731/Z/15/Z, 201375/Z/16/Z, 201375, 107731)
- UK Research and Innovation
- National Institute for Health Research Health Protection Research Unit
- National Institute for Health and Care Research
- British Heart Foundation (FS/19/19/34175)
- Department of Health and Social Care
- Royal Society
- Diabetes UK
- Public Health England
- Medical Research Council (MR/S003940/1)
- NIHR Oxford Biomedical Research Centre
- National Institute for Health and Care Research Applied Research Collaboration Oxford and Thames Valley
- Topics
- Health Sciences › Medicine › Infectious Diseases › COVID-19 Clinical Research Studies
- Health Sciences › Medicine › Oncology › COVID-19 and healthcare impacts
- Physical Sciences › Mathematics › Modeling and Simulation › COVID-19 epidemiological studies
- Keywords
- COVID-19 pandemic, COVID-19 mortality, risk factors, OpenSAFELY, primary care electronic health records, sex differences, age, socioeconomic deprivation, diabetes mellitus, severe asthma, ethnicity, NHS England, cohort studies
- MeSH terms
- Betacoronavirus, COVID-19, SARS-CoV-2, Adolescent, Adult, Age Factors, Aged, Aged, 80 and over, Aging, Asthma, Diabetes Mellitus, Female, Humans, Hypertension, Male, Middle Aged, Pneumonia, Viral, Sex Characteristics, Smoking, State Medicine, Cohort Studies, Proportional Hazards Models, Age Distribution, Coronavirus Infections, Risk Assessment, Black People, Asian People, Young Adult, Pandemics
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