Simon Cauchemez

Frequent presymptomatic household transmission of influenza A but not influenza B virus - Nature Health Based on two waves of data collection from 748 households in Hong Kong, this analysis sheds light on the number of transmission events that occurred before manifestation of symptoms in influenza A and...

Frequent presymptomatic household transmission of influenza A but not influenza B virus

www.nature.com/articles/s44...

Creation of new junior research groups at the Institut Pasteur - Call for applications 2026 - Research The Institut Pasteur is launching an international call to recruit new junior research group leaders leveraging cutting-edge transdisciplinary approaches to exploring infectious diseases, host-microbe...

Come to Institut Pasteur in beautiful Paris to create your own research group! It's such a nice environment to do research! research.pasteur.fr/en/call/crea...

Dont miss the ESPIDAM summer program in June 2026 in Stockholm, covering many key concepts for ID modelling:
stochastic models, AI for ID control, nowcasting and forecasting, phylodynamics, data analysis, network models, within-host models, health economics www.statistics.su.se/english/divi...

Interesting new paper on value of serological surveillance for reconstructing epidemics: www.thelancet.com/journals/lan...

And accompanying comment by @scauchemez.bsky.social: www.thelancet.com/journals/lan...

Applying modern analytical techniques to historical outbreaks enhances our understanding of past pandemics. Thanks to @charlotteperlant.bsky.social and our coauthors @fxweill.bsky.social, @paolobosetti.bsky.social and Mirabelle Scipioni !

In Apr-Jun, transmissions concentrated around Paris, mostly with short-range events. In Jul-Sep, long-range transmissions drove the spread to the north, where local hubs formed. Mean transmission distance declined in Oct. We estimate cholera was introduced in 10 major ports from outside France.

Spread was well captured by a gravity model, highlighting human mobility's role. Transmission rose by 2.5-fold in Aug., compensated by a drop in duration of infectivity of municipalities, likely due to interventions. Commercial ports played a key role both as points of introduction/local hubs.

The epidemic started in April in Paris area and expanded mostly to the North of France, with a peak in September. Infected municipalities clustered around major commercial ports.

The report provides a linelist of >4000 cholera deaths that occurred across France, along with detailed descriptions of control measures and maps documenting local outbreaks.

Modeling the spatio-temporal spread of cholera in France in 1892 From an historical perspective, it is important to understand how past epidemics spread; but such a task is complicated by limited data availability. …

Few years ago, an intern in the team explored historical archives and identified a fascinating report describing with great detail the large French cholera epidemic of 1892. The modelling analysis of these data has now been published in Epidemics.
www.sciencedirect.com/science/arti...
🧪

Very interesting framework developed by @meganodris.bsky.social to jointly infer epi and antigenic parameters from multi-pathogen serology!

Symposium & workshop on inequalities in infectious disease dynamics at LSHTM in April 2026. We aim to will bring together leading researchers and practitioners to share ideas, discuss recent advances, and reflect on future directions. Details & application: iddconf.org/lshtm-sympos... Closing 21 Jan

Pasteur courses

Just a few more days to apply to our 1-week course on Infectious Disease Modelling that will take place at Institut Pasteur, March 9-13 2026, in beautiful Paris! Application deadline: 15 December. www.pasteur.fr/en/education...

A couple of infectious disease modelling starter packs that may be of interest. 👇

H3N2 preprint: there are concerns of a severe incoming influenza season due to the drifted H3N2 K clade. We at @psioxford.bsky.social analysed epi data and ran scenario models to see what we could discern about K clade transmission dynamics: zenodo.org/records/1770....

(1/18)

Two days of great scientific discussions with >100 infectious disease modellers during the annual meeting of FRAME (the French Research Action on Modelling Epidemics), supported by @anrs-mie.bsky.social. What a fantastic research community!

Plague in Madagascar: a new model sheds light on the seasonality of outbreaks A new model has been developed to elucidate the seasonal dynamics of plague in Madagascar. In this country, where the disease remains endemic, and most often occurs between October and March. The asso...

A new model sheds light on the seasonal dynamics of plague in Madagascar — a step toward better prevention through a One Health approach.

🔗 Read more: www.pasteur.fr/en/research-...

@scauchemez.bsky.social
@abrault.bsky.social
@fanohi.bsky.social

« Surveillance de l’état de santé de la population française : ne cassons pas le thermomètre ! » TRIBUNE. Un collectif de chercheurs, d’universitaires et de médecins de santé publique appelle, dans une tribune au « Monde », à préserver et à consolider les missions et les moyens de l’agence sanita...

Santé Publique France est menacée. www.lemonde.fr/sciences/art...

Infectious Disease Modelling starter pack update! Many more modellers have joined Bluesky recently so this update is overdue. Pls keep on sending suggestions! (bio should contain experience relevant for this pack)
IDModelling pack 1: go.bsky.app/86Ao1a5
IDModelling pack 2 : go.bsky.app/2oBB7KX

Just few days left to apply to one of these postdoc positions in my infectious disease modelling Unit at @pasteur.fr in Paris!

Great collaboration with Institut Pasteur Madagascar showing how rat and flea dynamics drive plague seasonality, with important implications for control strategies against plague in @pnas.org!

Postdoctoral positions in epidemic mathematical/statistical modelling - Research Job description We are recruiting postdocs to contribute to research projects in the Mathematical Modelling of Infectious Diseases Unit, at Institut Pasteur in Paris. The candidates will be expected t...

New postdoc positions with a number of exciting epidemic modelling projects opening in our Unit at @pasteur.fr in beautiful Paris. Deadline for applications: 26th June.
research.pasteur.fr/en/job/postd...

Thrilled for the latest work from @comunelab.bsky.social !

We introduce a multilayer + multiscale model in two distinct frameworks (particle- & force-based), identifying how to balance contact and mobility cuts to mitigate epidemics. #ComplexSystems

www.sciencedirect.com/science/arti... 🧪🦠

📊💉 Following the success of its first interface day dedicated to surveillance in 2023, the Modelling network of the @anrs-mie.bsky.social is pleased to be organising today a new interdisciplinary and cross-sectoral event dedicated to the contribution of modelling to vaccinology

Latest post on measles vaccines and the fallacy of ‘one more study to settle things’: kucharski.substack.com/p/a-wild-vac...

Big turnout today in Paris to show solidarity with US-based scientists ❤️ 🗽 #StandUpforScienceFrance @pasteur.fr

Science, research & public health face unprecedented attacks in the U.S.

We stand with our American colleagues & support the Stand Up for Science call.

Join the global march tomorrow, incl. in Paris! 🧪✊

📍 March 7, 13:30 – Place Jussieu
🔗 More info: standupforscience.fr

#StandUpForScience

Comment l’IA va permettre de mieux anticiper les prochaines pandémies Dans un article de perspective de la revue Nature, des chercheurs d’Afrique, d’Amérique, d’Asie, d’Australie et d’Europe décrivent pour la première fois comment l’intelligence artificielle (IA) peut r...

www.pasteur.fr/fr/espace-pr... Un sujet quelque peu dans l'air du temps.

Fine-scale patterns of SARS-CoV-2 spread from identical pathogen sequences - Nature The analysis of pairs of identical SARS-CoV-2 genome sequences enables characterization of transmission patterns between geographies and age groups.

Pathogen genomes can provide insights into underlying disease transmission patterns but new methods are needed to analyze large genome datasets. Our work using identical pathogen sequences to characterize fine scale SARS-CoV-2 transmission was just published in @nature.com tinyurl.com/bdzk9xjj 🥳

Evolution of social contacts patterns in France over the SARS-CoV-2 pandemic: results from the SocialCov survey - BMC Infectious Diseases Background Non-pharmaceutical measures such as lockdowns, curfews and place closures were implemented in France during 2020–2022 to reduce contacts in the population, to limit the spread of SARS-CoV-2...

During COVID years in France, the SocialCov survey showed major evolution and strong heterogeneities in contact patterns according to age, employment, weekend/vacation. Led by @paolobosetti.bsky.social and @lullaopatowski.bsky.social.
bmcinfectdis.biomedcentral.com/articles/10....