Simon Cauchemez
@scauchemez.bsky.social
Professor of infectious disease epidemiology and modelling at Institut Pasteur, Paris. Transmission, epidemic dynamics and forecasting, seroepidemiology, vaccines and NPIs, respiratory and vector born diseases, zoonoses, Public Health. #IDSky
Pinned
Simon Cauchemez
@scauchemez.bsky.social
· Nov 22
Infectious Disease Modelling #IDModelling
Join the conversation
go.bsky.app
Infectious Disease Modelling starter pack update! First pack is full so I created a second one. 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
IDModelling pack 1: go.bsky.app/86Ao1a5
IDModelling pack 2 : go.bsky.app/2oBB7KX
Reposted by Simon Cauchemez
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)
(1/18)
Evaluation of the epidemiological outlook of the influenza A/H3N2 clade K in England during the 2025-26 season
Key findings England is currently experiencing a high growth rate of infections caused by the influenza A/H3N2 K clade. Antigenic change from the previously dominant clade, a rapid selective sweep evi...
zenodo.org
November 25, 2025 at 1:51 PM
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)
(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!
November 17, 2025 at 2:59 PM
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!
Reposted by Simon Cauchemez
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
🔗 Read more: www.pasteur.fr/en/research-...
@scauchemez.bsky.social
@abrault.bsky.social
@fanohi.bsky.social
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...
www.pasteur.fr
September 12, 2025 at 9:32 AM
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
🔗 Read more: www.pasteur.fr/en/research-...
@scauchemez.bsky.social
@abrault.bsky.social
@fanohi.bsky.social
Reposted by Simon Cauchemez
Santé Publique France est menacée. www.lemonde.fr/sciences/art...
« 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...
www.lemonde.fr
July 9, 2025 at 5:36 AM
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
IDModelling pack 1: go.bsky.app/86Ao1a5
IDModelling pack 2 : go.bsky.app/2oBB7KX
July 1, 2025 at 8:56 AM
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
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!
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...
research.pasteur.fr/en/job/postd...
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...
research.pasteur.fr
June 23, 2025 at 5:24 AM
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!
Plague remains a health issue in several parts of the world—especially in Madagascar, where epidemics follow a seasonal pattern. In our new @pnas.org paper, we link that seasonality to rat and flea dynamics and quantify the impact of various control strategies. doi.org/10.1073/pnas...
PNAS
Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans...
doi.org
June 13, 2025 at 3:54 PM
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!
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...
research.pasteur.fr/en/job/postd...
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...
research.pasteur.fr
June 5, 2025 at 5:22 AM
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...
research.pasteur.fr/en/job/postd...
Reposted by Simon Cauchemez
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... 🧪🦠
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... 🧪🦠
May 8, 2025 at 9:13 AM
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... 🧪🦠
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... 🧪🦠
Reposted by Simon Cauchemez
📊💉 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
March 24, 2025 at 10:12 AM
📊💉 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
Reposted by Simon Cauchemez
Latest post on measles vaccines and the fallacy of ‘one more study to settle things’: kucharski.substack.com/p/a-wild-vac...
March 13, 2025 at 2:26 AM
Latest post on measles vaccines and the fallacy of ‘one more study to settle things’: kucharski.substack.com/p/a-wild-vac...
Reposted by Simon Cauchemez
Big turnout today in Paris to show solidarity with US-based scientists ❤️ 🗽 #StandUpforScienceFrance @pasteur.fr
March 7, 2025 at 3:54 PM
Big turnout today in Paris to show solidarity with US-based scientists ❤️ 🗽 #StandUpforScienceFrance @pasteur.fr
Reposted by Simon Cauchemez
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
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
March 6, 2025 at 2:24 PM
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
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
Reposted by Simon Cauchemez
www.pasteur.fr/fr/espace-pr... Un sujet quelque peu dans l'air du temps.
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
March 6, 2025 at 11:26 AM
www.pasteur.fr/fr/espace-pr... Un sujet quelque peu dans l'air du temps.
Reposted by Simon Cauchemez
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 🥳
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.
tinyurl.com
March 5, 2025 at 4:48 PM
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 🥳
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....
bmcinfectdis.biomedcentral.com/articles/10....
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...
bmcinfectdis.biomedcentral.com
February 25, 2025 at 10:42 AM
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....
bmcinfectdis.biomedcentral.com/articles/10....
Reposted by Simon Cauchemez
AI is poised to accelerate understanding in infectious diseases, but its value needs to be demonstrated through close collaboration between research, industry, society, and policy.
Paper free to read: rdcu.be/eaxEw
Summary here: www.ox.ac.uk/news/2025-02...
Paper free to read: rdcu.be/eaxEw
Summary here: www.ox.ac.uk/news/2025-02...
Artificial intelligence for modelling infectious disease epidemics
Nature - This Perspective considers the application to infectious disease modelling of AI systems that combine machine learning, computational statistics, information retrieval and data science.
rdcu.be
February 20, 2025 at 10:13 AM
AI is poised to accelerate understanding in infectious diseases, but its value needs to be demonstrated through close collaboration between research, industry, society, and policy.
Paper free to read: rdcu.be/eaxEw
Summary here: www.ox.ac.uk/news/2025-02...
Paper free to read: rdcu.be/eaxEw
Summary here: www.ox.ac.uk/news/2025-02...
Reposted by Simon Cauchemez
Wastewater from airplane toilets?
We introduce a global Aircraft-Based Wastewater Surveillance Network (WWSN) for pandemic monitoring in Nature Medicine 🔗 doi.org/10.1038/s415...
Aircraft-based wastewater surveillance allows for real-time, non-invasive monitoring of global pathogen spread
Short 🧵
We introduce a global Aircraft-Based Wastewater Surveillance Network (WWSN) for pandemic monitoring in Nature Medicine 🔗 doi.org/10.1038/s415...
Aircraft-based wastewater surveillance allows for real-time, non-invasive monitoring of global pathogen spread
Short 🧵
Pandemic monitoring with global aircraft-based wastewater surveillance networks - Nature Medicine
By simulating the implementation of airport-based wastewater surveillance sites at the global level, a modeling study shows how this early warning system would perform in identifying sources of pandem...
doi.org
February 12, 2025 at 11:56 AM
Wastewater from airplane toilets?
We introduce a global Aircraft-Based Wastewater Surveillance Network (WWSN) for pandemic monitoring in Nature Medicine 🔗 doi.org/10.1038/s415...
Aircraft-based wastewater surveillance allows for real-time, non-invasive monitoring of global pathogen spread
Short 🧵
We introduce a global Aircraft-Based Wastewater Surveillance Network (WWSN) for pandemic monitoring in Nature Medicine 🔗 doi.org/10.1038/s415...
Aircraft-based wastewater surveillance allows for real-time, non-invasive monitoring of global pathogen spread
Short 🧵
Serological data provide key insights on pathogen circulation. We introduce a new R package, Rsero, which is a pipeline to store and analyze age-stratified sero data, estimate the history of pathogen circulation and compare different transmission models.
journals.plos.org/ploscompbiol...
journals.plos.org/ploscompbiol...
RSero: A user-friendly R package to reconstruct pathogen circulation history from seroprevalence studies
Author summary Antibodies are immune markers of past infections. Seroprevalence studies that characterize the seropositivity status in the population have been used for decades in epidemiological stud...
journals.plos.org
February 11, 2025 at 4:21 PM
Serological data provide key insights on pathogen circulation. We introduce a new R package, Rsero, which is a pipeline to store and analyze age-stratified sero data, estimate the history of pathogen circulation and compare different transmission models.
journals.plos.org/ploscompbiol...
journals.plos.org/ploscompbiol...
Consider applying to 2nd ESPIDAM summer program on infectious disease modelling, 23-27 June, in beautiful Stockholm! Covering many exciting topics (AI & ID, now/forecasting, networks, within-host models, data analysis...). So much to learn and great scientific discussions!
www.math.su.se/espidam
www.math.su.se/espidam
Matematiska institutionen
2nd ESPIDAM is a summer program for PhD students, Post Docs, Public Health scientists and others interested, supported by Stockholm University and the Nordic Research Council NordForsk.
www.math.su.se
February 4, 2025 at 9:38 AM
Consider applying to 2nd ESPIDAM summer program on infectious disease modelling, 23-27 June, in beautiful Stockholm! Covering many exciting topics (AI & ID, now/forecasting, networks, within-host models, data analysis...). So much to learn and great scientific discussions!
www.math.su.se/espidam
www.math.su.se/espidam
Odin is a such a fantastic tool for infectious disease modelers! Great opportunity to learn more about it!
Join us at the Odin-Monty Workshop, 24–25 March 2025, hosted at Imperial College London (White City campus) and online!
Travel grants are available, and registration closes on 19 February. Don’t miss your chance to shape the future of odin! #OdinMonty #Workshop #ModelingCommunity
Travel grants are available, and registration closes on 19 February. Don’t miss your chance to shape the future of odin! #OdinMonty #Workshop #ModelingCommunity
OPPORTUNITY! Always wanted to learn more about the Odin-Monty toolkit? Find out more & sign up for this workshop to explore new features, see real-world use cases
forms.gle/GaL7Apti8dHx...
@marcbaguelin.bsky.social @imperialcollegeldn.bsky.social
forms.gle/GaL7Apti8dHx...
@marcbaguelin.bsky.social @imperialcollegeldn.bsky.social
January 30, 2025 at 6:49 PM
Odin is a such a fantastic tool for infectious disease modelers! Great opportunity to learn more about it!
Reposted by Simon Cauchemez
Exciting opportunity to work with the excellent @conniciavarella.bsky.social in sunny Montpellier in the south of France.
Postdoc (Montpellier, France)
Mathematical modelling of Plasmodium vivax malaria
with @conniciavarella.bsky.social
at @umontpellier.bsky.social
More details: http://iddjobs.org/jobs/2236
Mathematical modelling of Plasmodium vivax malaria
with @conniciavarella.bsky.social
at @umontpellier.bsky.social
More details: http://iddjobs.org/jobs/2236
January 27, 2025 at 9:48 AM
Exciting opportunity to work with the excellent @conniciavarella.bsky.social in sunny Montpellier in the south of France.
Reposted by Simon Cauchemez
Looking for a position - postdoc, PhD, faculty - in infectious disease dynamics (broadly defined)?
Follow @iddjobs.bsky.social and check IDDjobs.org
This is a community site started in 2017 for open positions in our wide and varied field. Add your jobs, look for jobs, share opportunities!
Follow @iddjobs.bsky.social and check IDDjobs.org
This is a community site started in 2017 for open positions in our wide and varied field. Add your jobs, look for jobs, share opportunities!
January 21, 2025 at 9:22 PM
Looking for a position - postdoc, PhD, faculty - in infectious disease dynamics (broadly defined)?
Follow @iddjobs.bsky.social and check IDDjobs.org
This is a community site started in 2017 for open positions in our wide and varied field. Add your jobs, look for jobs, share opportunities!
Follow @iddjobs.bsky.social and check IDDjobs.org
This is a community site started in 2017 for open positions in our wide and varied field. Add your jobs, look for jobs, share opportunities!
Reposted by Simon Cauchemez
We are opening a call for applications 2025 – Creation of new junior research groups at the Institut Pasteur in Paris @pasteur.fr all details on our web site : research.pasteur.fr/en/call/call...
Call for applications 2025 – Creation of new research groups at the Institut Pasteur | Research - Institut Pasteur
research.pasteur.fr
December 8, 2024 at 3:04 PM
We are opening a call for applications 2025 – Creation of new junior research groups at the Institut Pasteur in Paris @pasteur.fr all details on our web site : research.pasteur.fr/en/call/call...
Reposted by Simon Cauchemez
La directrice de l'Institut Pasteur prévient que "les maladies infectieuses ont toujours représenté un risque, mais elles sont aussi l’une des principales menaces de santé publique à l’avenir."
Longue interview, morceaux choisis ⤵️ @leparisien.fr
1/12 www.leparisien.fr/so...
Longue interview, morceaux choisis ⤵️ @leparisien.fr
1/12 www.leparisien.fr/so...
« Désespérant » : face au « chaos écologique », la patronne de l’Institut Pasteur tire la sonnette d’alarme - Le Parisien
EXCLUSIF. Maladies infectieuses, vaccinations, origine des pathologies, sous-investissement dans la recherche… La directrice de l’Institut P
www.leparisien.fr
January 21, 2025 at 8:04 AM
La directrice de l'Institut Pasteur prévient que "les maladies infectieuses ont toujours représenté un risque, mais elles sont aussi l’une des principales menaces de santé publique à l’avenir."
Longue interview, morceaux choisis ⤵️ @leparisien.fr
1/12 www.leparisien.fr/so...
Longue interview, morceaux choisis ⤵️ @leparisien.fr
1/12 www.leparisien.fr/so...