Health data

Publications with accessible data

Data available from Swedish public agencies and large data produces

Public Health Agency of Sweden:
- Number of cases and tests: Official statistics about COVID-19 cases and tests in Sweden.
- Number of administered vaccine doses: Official statistics about the number of vaccines that have been administered in Sweden.
- Variants of concern: Official variants of concern in Sweden.
Swedish National Board of Health and Welfare (Socialstyrelsen): Statistics on COVID-19 in Sweden - underlying cause of death; infected and deceased among the elderly and among persons with disabilities and residential arrangements; inpatient care (updated every Wednesday).
Register-based research: information, tools, examples (see also our RECOVAC dashboard).
Swedish Intensive Care Register: Statistics about ICU admissions in Sweden.
Swedish Pregnancy Register: Data about all pregnant women diagnosed with COVID-19 and newborns born to mothers diagnosed with COVID-19.
SciLifeLab Autoimmunity and Serology profiling facility SARS-CoV-2 antibody test statistics: Hosted by the portal, manually updated on a weekly basis.
CRUSH Covid data and dashboard, Region Uppsala: Number of tests and % positivity in each postal code in Uppsala län.
COVID Symptom Study Sweden: National research initiative for large-scale data collection and analysis of symptoms, exposure, and risk factors associated with the COVID-19 infection.
National Pandemic Centre COVID-19 test statistics: The daily number of tests carried out between April and December 2020 as well as test results.
Statistics on post COVID-19 condition in Sweden: Information regarding the diagnoses associated with long-term affects following COVID-19 infection. Includes relevant demographic data as well as data on associated symptoms, research projects focused on the condition, and background information. Data updated monthly.
Vaccine administration and vaccine research: Visualisations of the vaccine administration in Sweden, research projects on vaccines, publications on vaccines.

The list of available data on this Portal was curated manually until February 2022. After February 2022, we instead began to use a script to query the Europe PMC database (making use of their API) in order to locate relevant publications. We only include data from publications about COVID-19/SARS-CoV-2 that BOTH involve at least one author affiliated with a Swedish research institution AND openly share reusable data and/or code. The code used for the query is written in Python and, as with all of our code, it is openly available in GitHub. We welcome others to reuse it and to repurpose it for other pathogens.

The lists of available data may not be exhaustive as the script used to generate it does not search for every possible database/repository. If you find that a dataset is missing, or that the information related to it is incorrect, please get in touch with us

Last updated: 2025-02-20

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Protein data (56)

Public health data (68)

Serology data (24)

Social science and humanities data (71)

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Publication	Available dataset and code
The COVID‐19 pandemic caused gender‐specific declines in knee surgery rates in Sweden from 2020 to 2021 Axenhus M., Magnéli M. (2024) Wiley DOI: https://doi.org/10.1002/jeo2.70030	Dataset for: Trends in Knee Surgeries and Knee Arthroplasty in Sweden: A Decade of Insights data Figshare
A combined neural ODE-Bayesian optimization approach to resolve dynamics and estimate parameters for a modified SIR model with immune memory Liu D., Sopasakis A. (2024) Elsevier BV DOI: https://doi.org/10.1016/j.heliyon.2024.e38276	Infection Dynamics code GitHub COVID-19 Projections data Institute for Health Metrics and Evaluation
A combined neural ODE-Bayesian optimization approach to resolve dynamics and estimate parameters for a modified SIR model with immune memory Liu D., Sopasakis A. (2024) Elsevier BV DOI: https://doi.org/10.1016/j.heliyon.2024.e38276	Infection Dynamics code GitHub COVID-19 Projections data Institute for Health Metrics and Evaluation
Differential immunometabolic responses to Delta and Omicron SARS-CoV-2 variants in golden syrian hamsters Rajaiah R., Pandey K., Acharya A., Ambikan A., et al (2024) Elsevier BV DOI: https://doi.org/10.1016/j.isci.2024.110501	Complex heatmaps for visualisation code Github Principal Component Analysis code Github
Older patients affected by COVID-19: investigating the existence of biological phenotypes Zucchelli A., Parigi M., Giliani S., Vetrano D. L., et al (2024) Springer Science and Business Media LLC DOI: https://doi.org/10.1186/s12877-024-05473-5	Frailty in Elderly Patients With COVID-19 (FRA-COVID) data National Library of Medicine: NCT04412265
Prevalent and persistent new-onset autoantibodies in mild to severe COVID-19 Jernbom A. F., Skoglund L., Pin E., Sjöberg R., et al (2024) Springer Science and Business Media LLC DOI: https://doi.org/10.1038/s41467-024-53356-5	Prevalent and persistent new-onset autoantibodies in mild to severe COVID-19 data Figshare Spike glycoprotein data UniProt: P0DTC2
Mental illness and COVID-19 vaccination: a multinational investigation of observational & register-based data Barker M. M., Kõiv K., Magnúsdóttir I., Milbourn H., et al (2024) Springer Science and Business Media LLC DOI: https://doi.org/10.1038/s41467-024-52342-1	Statistical code used for the COVIDMENT and Swedish register analysis code Github
Immunomics in one health: understanding the human, animal, and environmental aspects of COVID-19 Gao J., Zhang C., Wheelock Å. M., Xin S., et al (2024) Frontiers Media SA DOI: https://doi.org/10.3389/fimmu.2024.1450380	R scripts to analyse the CYTOF data code Github Mapping the recovery of critically ill COVID 19 patients by mass cytometry data Flowrepository
Anti-SARS-CoV-2 mRNA vaccination among patients living with SLE in Sweden: Coverage and clinical effectiveness Mageau A., Simard J. F., Svenungsson E., Arkema E. V. (2024) SAGE Publications DOI: https://doi.org/10.1177/09612033241273052	Anti-SARS-CoV-2 mRNA vaccination among patients living with SLE in Sweden: coverage progression and clinical effectiveness. data Open Science Framework
Prevalence and Determinants of Changes in Physical Activity and Sedentary Behavior during and after the COVID-19 Pandemic: A Swedish Repeated Cross-Sectional Study Kerstis B., Elvén M., Nilsson K. W., von Heideken Wågert P., et al (2024) MDPI AG DOI: https://doi.org/10.3390/ijerph21080960	Complex heatmaps for visualisation data Figshare

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