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Starting Date
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Aug 2015
Ending Date
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Jul 2026
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About

Statistical and Mathematical Modeling in Biological Applications — SaMMBA

Seminars are currently accessible onsite (seminar + buffet lunch) and online (link provided by email).

[It is possible to contact any of the organisers to be included on the mailing list]

The seminar series Statistical and Mathematical Modeling in Biological Applications (SaMMBA) features monthly lectures and discussions with leading modelers in biological sciences. Presentations are in English or French and target an interdisciplinary audience. Seminars are held on the campus of Institut Pasteur. Access is free. However, to enter the campus, one needs be pre-registered and get a badge that is obtained at the main gate in exchange of a piece of ID (passport, citizen card or driver licence). If you are planning to come from outside the campus, please contact Lulla Opatowski to have a badge ready when you arrive.

For additional information about the series, contact the organizers*: Romulus BrebanVittoria Colizza, Lulla Opatowski, Raphaëlle Metras & Laura Temime. To arrange to meet with an invited speaker, contact the host of that speaker. 

The SaMMBA seminars is funded by the Inception program, Institut Pasteur and the ANRS-MIE.

We received financial support in the past from the ANRS, the region Ile de France through the DIM Systèm es complexes and the DIM One health, from Inserm and the department MIA of INRA.

Former active organizers of the seminars: Virginie Supervie and Elisabeta Vergu.

Next Lecture

Sonja Lehtinen (ETH Zurich)

Title : Evolutionary epidemiology of antibiotic resistance 
Abstract:Antibiotic resistance is a serious public health concern. Despite a wealth of epidemiological data on resistance dynamics, we lack a mechanistic understanding of the evolutionary and ecological processes that give rise to these dynamics. This hinders our progress towards reliable predictive models of resistance epidemiology. In this talk, I will present modelling work addressing three puzzling trends:
Why do resistant and sensitive strains appear to coexist over long time-scales? Why do we observe so much multidrug resistance? Why are many resistance genes carried on plasmids rather than the chromosome?
I will discuss how tractable mathematical models provide insights into resistance ecology and evolution, and the public health implications of such insights.

Contact: Lulla Opatowski

Tuesday, Sept 10th, 2024
12noon -1pm
Institut Pasteur / Online

Full Schedule 2024-2025

Sonja Lehtinen  Evolutionary epidemiology of antibiotic resistance Tuesday, Sept 10th, 2023
12noon -1pm

Institut Pasteur / Online

Full Schedule 2023-2024

Amandine Veber Modelling the dynamics of genetic diversity in a spatially structured population Tuesday, Sept 5th, 2023
12noon -1pm

Institut Pasteur / Online
Juan Vesga Modelling CCHF spillover in high endemic settings and the potential impact of vaccines  Tuesday, Oct 4th, 2023
12noon -1pm

Institut Pasteur / Online
Kris Parag (Imperial College London) Ineffective reproduction numbers.
What do conventional measures of infectious disease transmissibility fail to measure?
Wednesday, Dec 13th, 2023
12noon -1pm

Institut Pasteur / Online
Stefan Flashe (LSHTM) Pathogen interactions: relevant for vaccine decision making? Wednesday, Jan 17th, 2024
12noon -1pm
Institut Pasteur / Online
James Hay (Oxford Big Data Institute, UK) Using quantitative biomarkers to track infectious disease dynamics Friday, Feb 2nd, 2024
12noon -1pm
Institut Pasteur / Online
Kevin Foster (Univ of Oxford) Competition and warfare in bacteria and the human microbiome Tuesday, March 12th
12noon -1pm
Institut Pasteur / Online
Georg Gerber (Harvard) Novel Machine Learning Methods for Dissecting the Microbiome to Improve Human Health Tuesday, April 2nd
12noon -1pm
Institut Pasteur / Online
Sebastian Duchenes (Institut Pasteur) The impact of sequence sampling times in infectious disease phylodynamics Tuesday, May 14
12noon -1pm
Institut Pasteur / Online
Luis Almeida (CNRS and Sorbonne Université)

Mathematical models for mosquito and pest population control

Tuesday, June 4
12noon -1pm
Institut Pasteur / Online

Full Schedule 2022-2023

Eugenio Valdano    Non-selective distribution of infectious disease prevention may outperform risk-based targeting Wednesday, Sept 14th, 2022
12 noon -1 pm
Institut Pasteur
François Massol Some uses of network methods to understand host-microbiota interactions Oct 4th 2022
12 noon -1 pm
Institut Pasteur
Aleksandra Walczak & Thierry Mora Immune repertoires: dynamics and co-evolution with pathogens Wednesday, Nov 16th 2022
12 noon -1 pm
Institut Pasteur
Florence Debarre Stochastic models of early epidemics, and their applications to Covid-19 Wednesday, Dec 7th 2022
12 noon -1 pm
Institut Pasteur
Samuel Alizon How host heterogeneity impacts the way (co)infections spread Wednesday, Jan 4th 2023
12 noon -1 pm
Institut Pasteur
Niel Hens On risk perception and contact behaviour during the COVID-19 pandemic Wednesday, March 8th 2023
12 noon -1 pm
Institut Pasteur
Florence Bansept Evolution in biphasic life cycles Tuesday, April 4th 2023
12 noon -1 pm
Institut Pasteur
Marga Pons Salort Emergence of enteroviruses as novel causes of diseases: opportunities to infer changes in their circulation dynamics from sero-epidemiology data Wednesday, May 17th 2023
12 noon -1 pm
Institut Pasteur
Warren Tennant Tuesday, June 6th 2023
12 noon -1 pm
Institut Pasteur

Schedule 2021-2022

Mircea Sofonea
Nested dynamics for the evolutionary epidemiology of multiple infections

Wednesday, Sept 8th 2021,

12 noon -1 pm
Online

Fabien Crauste Mathematical and Computational Immunology: Differentiation, Heterogeneity, and Multiscale Descriptions of the CD8 T Cell Immune Response

Tuesday, Oct 5th 2021,

12 noon -1 pm
Online

Joshua Weitz Pandemic Theory and Pasteur’s Quadrant: On the Ongoing Need for Response
and Mitigation Instruments

Tuesday, Nov 9th 2021,

12 noon -1 pm
Online

Ben Cooper
Determining appropriate antibiotic treatment duration and understanding its impact on antimicrobial resistance. 

Wed, Dec 15th 2021,
12noon – 1pm
Online

Frederik Graw Deciphering infection and immune processes within tissues

Wed, Feb 16th 2022, 12noon -1pm
Online

Manlio De Domenico Coupling human behavior with epidemic spreading: multilayer networks and the distorting lens of human mobility data Tuesday March 8th 2022
12noon -1pm
Online
Claude Loverdo Bacteria in the digestive tract : Evolution in a flow; and stochastic models of population dynamics for inferring colonization probability. Tuesday April 19th 2022
12noon -1pm
Institut Pasteur / Online
Guillaume Fournié Avian influenza transmission and control across live poultry trading networks  Wed June 8th 2022
12noon -1pm
Institut Pasteur / Online

Schedule 2020-2021

Oliver Ratmann
Sources of HIV infections among young & adolescent women in Africa: estimates from population-based viral phylogenetic deep sequence data

Tuesday, March 16th 2021,

12 noon -1 pm
Online

Benoit Liquet Sparse Group Models for leveraging Pleiotropy effect from genome-wide association studies

Tuesday, April 13th 2021

10am-11am

Online

Andrea Wilson Investigating and modelling the impact of vaccines and genetic selection on infectious disease transmission in farmed animals

Wednesday, May 12th

12noon-1pm

Online

Michael White Mathematical modelling of novel serological diagnostic tools for malaria and coronaviruses

Wednesday, June 16th

12noon-1pm

Online

Full Schedule 2019-2020

Marc Baguelin Mathematical modelling to inform public health policies: shorts stories on influenza vaccination in the UK and ebola epidemics
Wednesday, Sept 25th, 2019
12 noon -1 pm
Institut Pasteur
Samuel Soubeyrand Inferring epidemiological links from deep sequencing data with a statistical learning approach Wednesday, Oct 16th, 2019
12 noon -1 pm
Institut Pasteur
Eric Volz Hidden population structure in pathogen phylogenies Wednesday, Nov 13th, 201912 noon -1 pm
Institut Pasteur
France Mentré Modelling the impact of gut exposure to moxifloxacin (MXF) on the temporal changes in gut microbiota diversity in healthy volunteers Tuesday, Dec 10th, 201912 noon -1 pm
Institut Pasteur
Gabriela Gomez Unveiling the effects of individual variation in epidemiology, ecology and evolution

Tuesday, Jan 14th, 2020

12 noon -1 pm
Institut Pasteur

France Mentré Modelling the impact of gut exposure to moxifloxacin (MXF) on the temporal changes in gut microbiota diversity in healthy volunteers

Tuesday, Feb 25th, 2020

12 noon -1 pm
Institut Pasteur

Nicole Mideo Unveiling the effects of individual variation in epidemiology, ecology and evolution

Wednesday, Mar 11th, 2020

12 noon -1 pm
Institut Pasteur

Full Schedule 2018-2019

Alberto d’Onofrio Behavioural Epidemiology and its limitations: A talk based on very simple models Tuesday, Sept 11th, 2018
12 noon -1 pm
Institut Pasteur
Amphitheatre Monod
Michael Blum Polygenic risk score: is there room for improvement? Wednesday, Oct 3rd, 2018
12 noon -1 pm
Institut Pasteur
 Rowland Kao Modelling explorations in bovine Tuberculosis: Investigations in a unique natural laboratory Tuesday, Nov 20th, 2018
12 noon -1 pm
Institut Pasteur
 Marc Chadeau-Hyam Developing hidden Markov Models for lung cancer risk and dynamics Tuesday, Dec 4th, 2018
12 noon -1 pm
Institut Pasteur
 Béatrice Laroche Inférence de dynamiques écologiques du microbiote digestif et lien avec des modèles épidémiologiques Wednesday, Jan 9th, 2019
12 noon -1 pm
Institut Pasteur
 Anne Cori Statistical modelling for real-time outbreak response: Recent examples on Ebola and other pathogens Tuesday, Feb 5th, 2019
12 noon -1 pm
Institut Pasteur
 Nicola Perra Forecasting the spreading of diseases in the digital era Wednesday, March 27th, 2019
12 noon -1 pm
Institut Pasteur
Christian Althaus Causes and consequences of variation in human papillomavirus vaccination uptake in Switzerland Tuesday, April 16th, 2019
12 noon -1 pm
Institut Pasteur
Shweta Bansal From Social Behavior to Network Structure for Wildlife Disease Transmission Tuesday, May 7th, 2019
12 noon -1 pm
Institut Pasteur
Eugenio Valdano Predicting epidemic risk from contact and mobility data Tuesday, June 4th, 2019
12 noon -1 pm
Institut Pasteur

Full Schedule 2017-2018

Benoit Durand Analysis of the Spatial Organization of Pastures as a Contact Network, Implications for Potential Disease Spread and Biosecurity in Livestock, France, 2010

Tuesday, Sept 5th, 2017
12 noon -1 pm
Institut Pasteur
Room BIME 28-01-01A

Thibaut Jombart The R Epidemics Consortium: building the next generation of statistical tools for outbreak response using R Tuesday, Oct 4th, 2017
12 noon -1 pm
Institut Pasteur
Room BIME 28-01-01A
 David Paltiel  Do Less Harm: Evaluating HIV Programmatic Alternatives in Response to Cutbacks in Foreign Aid  Wednesday, Nov 14th, 2017
12 noon -1 pm
Institut Pasteur
Room auditorium François Jacob
 Thibaud Porphyre   Climbing the ladder to preparedness: modelling the spread of swine fevers in Great Britain  Wednesday, Dec 13th, 2017
12 noon -1 pm
Institut Pasteur
Room auditorium François Jacob
 François Blanquart   The epidemiology and evolution of HIV-1 virulence  Wednesday, Jan 10th, 2018
12 noon -1 pm
Institut Pasteur
Room TBA

Tini Garske

 The Vaccine Impact Modelling Consortium: Estimating the mortality and morbidity averted through childhood vaccination programmes in low and middle income countries  Wednesday, Feb 7th, 2018
12 noon -1 pm
Institut Pasteur
Room TBA

 Cécile Viboud

Spatial dynamics and forecasting of infectious diseases: application to influenza and Ebola  Tuesday, March 13th, 2018
12 noon -1 pm
Institut Pasteur
Room Jean-Paul Aubert

 Troy Day

Can we use mathematical modeling to design evolution-proof drugs?  Tuesday, April 17th, 2018
12 noon -1 pm
Institut Pasteur
Room Jean-Paul Aubert
 Matt Ferrari  Better with age: insights on measles persistence and control

 Wednesday May 2nd 2018
12 noon -1pm
Institut Pasteur

Marc Lipsitch Why haven’t antibiotic-resistant bacteria (pneumococci, at least) taken over the world? Tuesday, June 19th 2018
12 noon -1pm
Institut Pasteur
Room Jean-Paul Aubert

Full Schedule 2016-2017

Raphaëlle METRAS  Studying drivers for arboviral emergence: the case of Rift Valley fever in Mayotte Abstract Wednesday, Sept 7th, 2016
12 noon -1 pm
Room BIME 28-01-01A
Rebecca GRAIS A heat-stable rotavirus vaccine: a Phase III trial in Niger Abstract Friday, Oct 14th, 2016
12 noon -1 pm
Room BIME 28-01-01A
Christophe FRASER Tracking and tackling the HIV-1 pandemic: models, evolution, genomics  Abstract Wednesday, Nov 9th, 2016
12 noon -1 pm
Room Retrovirus
Niel HENS Using frailty models to quantify heterogeneity in acquisition of infectious diseases based on multivariate serological data Abstract Tuesday, Dec 6th, 2016
12 noon -1 pm
Room Jean Paul  Aubert
Kevin JEAN Modelling Yellow Fever burden in Africa: insights for short- and long-term control strategies.  Abstract Wednesday, Jan 4th, 2017
12 noon -1 pm
Room BIME 28-01-01A
Michele TIZZONI  Fast and accurate dynamic estimation of field effectiveness of meningococcal vaccines Thursday, Feb 2nd, 2017
12 noon -1 pm
Room Jean Paul  Aubert
Anne GOELZER Quantitative prediction of genome-wide resource allocation in bacteria Tuesday, March 7th, 2017
12 noon -1 pm
Room Jean Paul  Aubert
Viet Chi Tran Modèles mathématiques pour des épidémies se propageant sur des graphes aléatoires Wednesday, April 19th, 2017
12 noon -1 pm
Room Retrovirus
Karoline Faust  Modeling the dynamics of a synthetic gut community  Wednesday, May 3rd, 2017
12 noon -1 pm
Room Retrovirus
Romulus Breban  Diffusion within Populations: From Infectious Diseases and Market Sales to Fashion First Names Thursday, June 8th, 2017
12 noon -1 pm
Room Jean Paul  Aubert

Full Schedule 2015-2016

Henrik SALJE Use of mathematical modelling to reconstruct 60 years of chikungunya epidemiology in the Philippines Abstract Wed, Sep 9th, 2015
12 noon -1 pm
Room Jean-Paul Aubert
Anton CAMACHO  The impact of dynamical modelling on public-health decisions made during the 2013-2015 Ebola outbreak Abstract Tuesday, Oct 6th, 2015
  12 noon -1 pm
Room BIME 28-01-01A
Marc LAVIELLE Modeling and simulation of complex pharmacometric models: methods and tools Abstract Tue, Nov 3rd, 2015
  12 noon -1 pm
Room BIME 28-01-01A
David CLAESSEN Eco-evolutionary dynamics in spatially complex systems: from agro-ecology to the global ocean Abstract Tue, Dec 8th, 2015
12 noon -1 pm
Room Jean-Paul Aubert
Jean-Pierre NADAL Modeling the contagion dynamics of the 2005 French riots Abstract Tuesday, Jan 5th, 2016
  12 noon -1 pm
Room BIME 28-01-01A
Mathieu ANDRAUD Infectious diseases in pigs: from parameter estimation to dynamic models Abstract Tue, Feb 9th, 2016
  12 noon -1 pm
Room BIME 28-01-01A
Marcel SALATHé Digital Epidemiology: Opportunities & Challenges of an Evolving Field Abstract Wed, March 16th, 2016
  12 noon -1 pm
Room BIME 28-01-01A
Daniela DE ANGELIS Prediction of antibiotic resistance in Staphylcoccus aureus Abstract Tue, April 5th, 2016
  12 noon -1 pm
Room Jean-Paul Aubert
Philippe LEMEY Phylodynamic inference in viral outbreaks: power and limitations. Abstract Tue, May 3rd, 2016
  12 noon -1 pm
Room BIME 28-01-01A
Hans BOGAARDS Second-guessing the clustering of multiple HPV types: prospects of type replacement following mass immunization Abstract Tue, June 14th, 2016
  12 noon -1 pm
Room BIME 28-01-01A

Full Schedule 2014-2015

Yamir MORENO Dynamics of Interacting Diseases Abstract Tue, Sep 9th, 2014
12 noon -1 pm
Room Jean-Paul Aubert
Chiara POLLETO Modelling disease spatial spread and real time assessment of emerging pathogen events Abstract Wed, Oct 8th, 2014
  12 noon -1 pm
Room BIME 28-01-01A
Gilles WAINRIB Integrative network inference of gene expression data and applications to inflammatory bowel disease Abstract Tue, Nov 4th, 2014
  12 noon -1 pm
Room Jean-Paul Aubert
Christian ROBERT ABC methods for Bayesian model choice Abstract Tue, Dec 2nd, 2014
12 noon -1 pm
Room DUCLAUX RDC HAUT
Guillaume ACHAZ The strange case of the Standard Neutral Model of molecular evolution: when, what and why Abstract Tue, Jan 13th, 2015
 12 noon -1 pm
Room DUCLAUX RDC HAUT
Nicolas BACAER Epidemic models and seasonality Abstract Tue, Feb 10th, 2015
12 noon -1 pm
Room BIME 28-01-01A
Benoit PERTHAME Kinetic models of chemotaxis and traveling pulses Abtract Tue, Mar 10th, 2015
  12 noon -1 pm
Room DUCLAUX RDC HAUT
Samuel ALIZON Why does HIV harm its host? Clinical and epidemiological applications of virus phylogenies Abstract Tue, Apr 14th, 2015
  12 noon -1 pm
Room BIME 28-01-01A
Alan PERELSON Mathematical modeling and the potential cure of HIV Abstract Wed, May 20th, 2015
  12 noon -1 pm
Room Retrovirus
Ron BROOKMEYER Tracking the AIDS Epidemic: Estimating HIV Incidence Abtract Tue, June 2nd, 2015 
12 noon -1 pm
Pitié Salpétrière hospital,
Ecologie Cellulaire bldg.

Full Schedule 2013-2014

Alun LLOYD Modeling novel strategies for controlling mosquito-borne diseases Abstract Tue, Sep 24th, 2013 
12 noon -1 pm
Room Jean-Paul Aubert
Joseph DUREAU  The Public Library of Models: an open source project towards social modeling Abstract Tue, Oct 8th, 2013 
12 noon -1 pm 

Room Jules Bordet
Julia GOG Capturing the spread and evolution of influenza A Abstract Tue, Nov 5th, 2013 
12 noon -1 pm
Room Jean-Paul Aubert
Véronique THOMAS-VASLIN Modélisation de la dynamique lymphocytaire T  Abstract Tue, Dec 10th, 2013 
12 noon -1 pm 

Room Jean-Paul Aubert
Bernard
 CAZELLES Wavelet analysis as a tool for considering non-stationarity in Epidemiology Abstract Tue, Jan 7th, 2014 
12 noon -1 pm 

Room Jean-Paul Aubert
Jeremie GUEDJ Modeling hepatitis C viral kinetic in the era of direct acting antiviral agents: review and perspectives Abstract Tue, Feb 11th, 2014
12 noon -1 pm 

Room Jean-Paul Aubert
Peter WHITE Tackling TB in the Age of Austerity: ensuring we use novel tools and approaches cost-effectively Abstract Tue, Mar 4th, 2014
12:30 noon -1:30 pm

Room Jean-Paul Aubert  
Aurélien LATOUCHE Regression modeling of the cumulative incidence function with missing causes of failure Abstract Tue, Apr 1st, 2014
12 noon -1 pm

Room Jean-Paul Aubert 
Aaron KING How to tell if the honeymoon is over: testing hypotheses about pertussis and its resurgence Abstract Tue, May 6th, 2014
12 noon -1 pm 

Room Jean-Paul Aubert 
Carlo Giovanni CAMARDA Modelling Social Contact Data: a smoothing constrained approach Abstract Tue, Jun 10h, 2014
12 noon -1 pm 

Room Jean-Paul Aubert 

Fundings