Contemporary data
Mpox epidemic 2022:
Repository contains a copy of public data from WHO on weekly mpox cases in 2022, by country. Also synthetic data generated by the TANGO model on sexual behavior histories of 170.000 simulated individuals (sexual network) and simulated epidemics on the synthetic networks. Source code for the TANGO model is included. GitHub - UlrikHvid/TANGO model
Heterogeneity in testing for infectious diseases:
This project explores the profound consequences of person-to-person variability in participation in an infectious disease testing program. The project made use of test data (PCR and antigen) from Statens Serum Institute. GitHub - NBIBioComplexity/TestHeterogeneity
Historical data
Danish Royal Board of Health (1867-1904):
We often use aggregated infectious disease-notification data in our research (for example: Ingholt et al, 2025, Economic History Review). These monthly data form each medical region in Denmark are transcribed from annual reports from the Danish Royal Board of Health for the period 1867-1904. You can explore the data in our interactive application. Link til Shinyapps
100 Years of Mortality: Danish Burial Records:
The 1800's were a time where diseases like cholera, scarlet fever and influenza ravaged Denmark. Back then, every single burial was meticulously written down in the Danish burial records. Thanks to an immense effort of transcription of these records, mortality data from 1814 to 1914 is now available. At PandemiX, we have analysed these 100 years of mortality, and compiled an overview of the largest mortality crises of the 19th century as well as aggregated data on county level. GitHub-SignatureFeatures19thCentury
For how long did the world's first vaccine induce immunity against smallpox? - A modelling study
In connection with our work on determining how long the first smallpox vaccine conferred immunity against infection, we have transcribed data from the hospital Søkvæsthuset. Between 1824 and 1835, Søkvæsthuset functioned as a smallpox hospital and quarantine station. Here, it was mandatory to hospitalise anyone with smallpox during this period, and the weekly patient lists from Søkvæsthuset therefore give a good overview of a very large fraction of all smallpox cases in Copenhagen at the time. The dataset from Søkvæsthuset can be found on Github:
Release Modeling epidemiological patterns of smallpox in Copenhagen in the 19th century after the introduction of the vaccine · basspoder/smallpox_post_honeymoon_phase_1824_1872 · GitHub
To analyse the spread of smallpox after the introduction of the vaccine we have constructed a numerical model simulating the vaccine rollout and the dynamics of the smallpox epidemics before, during, and after the vaccine rollout. The model shows that the decreasing vaccine effectiveness with age can explain why smallpox returned after 1824, and why they went from being a deadly childhood illness to a milder illness in adults. The code for this model (MATLAB) is available on Figshare:
https://doi.org/10.6084/m9.figshare.28182581
Data on vaccination status of Danish children, 1801-35:
As background information on the vaccine coverage we used records of registered vaccinations (name, age, and time of vaccination) in Frederiksborg County. These and the historical data mentioned above were transcribed by Søren K. Poder.
