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List of works by Thibaut Jombart

A fast likelihood solution to the genetic clustering problem.

scientific article

A graph-based evidence synthesis approach to detecting outbreak clusters: An application to dog rabies

A high-resolution genomic analysis of multidrug-resistant hospital outbreaks of Klebsiella pneumoniae

scientific article published on 20 February 2015

A simple approach to measure transmissibility and forecast incidence

scientific article published on 24 February 2017

A timescale for evolution, population expansion, and spatial spread of an emerging clone of methicillin-resistant Staphylococcus aureus

scientific article (publication date: 8 April 2010)

An Aboriginal Australian genome reveals separate human dispersals into Asia

scientific article (publication date: 7 October 2011)

Analysis of temporal trends in potential COVID-19 cases reported through NHS Pathways England

scientific article published on 20 May 2020

Bayesian inference of transmission chains using timing of symptoms, pathogen genomes and contact data

article

Bayesian reconstruction of disease outbreaks by combining epidemiologic and genomic data

scientific article

Climate shaped the worldwide distribution of human mitochondrial DNA sequence variation

scientific article

Consensus genetic structuring and typological value of markers using multiple co-inertia analysis

scientific article

Deciphering the complex: methodological overview of statistical models to derive OMICS-based biomarkers

scientific article published on 05 August 2013

Discriminant analysis of principal components: a new method for the analysis of genetically structured populations ⬇️

scientific article published on October 15, 2010

Ebola Virus Disease among Male and Female Persons in West Africa

scientific article published on January 2016

Ebola virus disease among children in West Africa

scientific article

Ebola virus disease in West Africa--the first 9 months of the epidemic and forward projections

scientific article

Epidemic curves made easy using the R package

scientific article published on 31 January 2019

Erratum: Genomic signatures of human and animal disease in the zoonotic pathogen Streptococcus suis

scientific article published on 12 May 2015

Estimating the Severity and Subclinical Burden of Middle East Respiratory Syndrome Coronavirus Infection in the Kingdom of Saudi Arabia

scientific article published on 4 February 2016

Exposure Patterns Driving Ebola Transmission in West Africa: A Retrospective Observational Study

scientific article

Finding essential scales of spatial variation in ecological data: a multivariate approach

scientific article published in 2009

Genome sequencing defines phylogeny and spread of methicillin-resistant Staphylococcus aureus in a high transmission setting

scientific article published on 9 December 2014

Genomic signatures of human and animal disease in the zoonotic pathogen Streptococcus suis

scientific article

Heterogeneities in the case fatality ratio in the West African Ebola outbreak 2013–2016

scientific article (publication date: 10 April 2017)

Historical variations in mutation rate in an epidemic pathogen, Yersinia pestis

scientific article published on 27 December 2012

How to measure and test phylogenetic signal

scholarly article by Tamara Münkemüller et al published 10 April 2012 in Methods in Ecology and Evolution

Inferring the number of COVID-19 cases from recently reported deaths

scientific article (preprint)

Inferring the number of COVID-19 cases from recently reported deaths

scientific article published on 27 April 2020

Key data for outbreak evaluation: building on the Ebola experience

scientific article

Measuring the unknown: An estimator and simulation study for assessing case reporting during epidemics

scientific article published on 23 May 2022

Multiple independent introductions of Plasmodium falciparum in South America

scientific article

Outbreak analytics: a developing data science for informing the response to emerging pathogens.

scientific article

OutbreakTools: a new platform for disease outbreak analysis using the R software

scientific article (publication date: June 2014)

Pandemic potential of a strain of influenza A (H1N1): early findings

scientific article

Patterns and dynamics of genetic diversity in Plasmodium falciparum: what past human migrations tell us about malaria

scientific article

Phylogeography of Toxoplasma gondii points to a South American origin

scientific article

Plasmodium falciparum accompanied the human expansion out of Africa.

scientific article published on 17 June 2010

Plasmodium falciparum mitochondrial genetic diversity exhibits isolation-by-distance patterns supporting a sub-Saharan African origin.

scientific article published on September 2013

Population substructure and signals of divergent adaptive selection despite admixture in the sponge Dendrilla antarctica from shallow waters surrounding the Antarctic Peninsula

scientific article published on 25 June 2019

Putting phylogeny into the analysis of biological traits: a methodological approach

scientific article published on 31 March 2010

Revisiting Guerry’s data: Introducing spatial constraints in multivariate analysis

Spatiotemporal dynamics in the early stages of the 2009 A/H1N1 influenza pandemic

scientific article

The Ecological Dynamics of Fecal Contamination and Salmonella Typhi and Salmonella Paratyphi A in Municipal Kathmandu Drinking Water

scientific article

The role of rapid diagnostics in managing Ebola epidemics

scientific article published on December 2015

Towards an integrated ecosystem of R packages for the analysis of population genetic data

scientific article

Unraveling the drivers of MERS-CoV transmission

scientific article published on 25 July 2016

West African Ebola epidemic after one year--slowing but not yet under control

scientific article

Within-population genetic diversity of Plasmodium falciparum vaccine candidate antigens reveals geographic distance from a Central sub-Saharan African origin.

scientific article published on 4 January 2013

Yersinia pestis genome sequencing identifies patterns of global phylogenetic diversity

scientific article published in December 2010

adegenet 1.3-1: new tools for the analysis of genome-wide SNP data

scientific article

adephylo: new tools for investigating the phylogenetic signal in biological traits

scientific article published on 4 June 2010

apex: phylogenetics with multiple genes

scientific article published on 15 July 2016

epicontacts: Handling, visualisation and analysis of epidemiological contacts

scientific article published on 10 May 2018

epiflows: an R package for risk assessment of travel-related spread of disease

epiflows: an R package for risk assessment of travel-related spread of disease

scientific article published on 31 August 2018

mvMapper: interactive spatial mapping of genetic structures.

scientific article published on 7 October 2017

outbreaker2: a modular platform for outbreak reconstruction

scholarly article by Finlay Campbell published in October 2018

treespace: Statistical exploration of landscapes of phylogenetic trees

scientific article

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