A Bayesian Inference Framework to Reconstruct Transmission Trees Using Epidemiological and Genetic Data

Methods to infer transmission risk factors in complex outbreak data

(2011) S. Cauchemez et al.   Journal of the Royal Society Interface

Unravelling transmission trees of infectious diseases by combining genetic and epidemiological data

(2011) R. J. F. Ypma et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Relationship Between Clinical Signs and Transmission of an Infectious Disease and the Implications for Control

(2011) B. Charleston et al.   SCIENCE

Reconstructing disease outbreaks from genetic data: a graph approach

(2010) T Jombart et al.   HEREDITY

Particle Markov chain Monte Carlo methods

(2010) Christophe Andrieu et al.   JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES B-STATISTICAL METHODOLOGY

Beyond the Consensus: Dissecting Within-Host Viral Population Diversity of Foot-and-Mouth Disease Virus by Using Next-Generation Genome Sequencing

(2010) C. F. Wright et al.   JOURNAL OF VIROLOGY

A Bayesian Phylogenetic Method to Estimate Unknown Sequence Ages

(2010) B. Shapiro et al.   MOLECULAR BIOLOGY AND EVOLUTION

Sequencing technologies — the next generation

(2009) Michael L. Metzker   NATURE REVIEWS GENETICS

Bayesian Phylogeography Finds Its Roots

(2009) Philippe Lemey et al.   PLoS Computational Biology

The genomic and epidemiological dynamics of human influenza A virus

(2008) Andrew Rambaut et al.   NATURE

Integrating genetic and epidemiological data to determine transmission pathways of foot-and-mouth disease virus

(2008) E. M Cottam et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The Global Circulation of Seasonal Influenza A (H3N2) Viruses

(2008) C. A. Russell et al.   SCIENCE

Epidemiological inference for partially observed epidemics: The example of the 2001 foot and mouth epidemic in Great Britain

(2008) Irina Chis Ster et al.   Epidemics

Transmission Pathways of Foot-and-Mouth Disease Virus in the United Kingdom in 2007

(2008) Eleanor M. Cottam et al.   PLoS Pathogens