Simultaneous reconstruction of evolutionary history and epidemiological dynamics from viral sequences with the birth-death SIR model

Recursive algorithms for phylogenetic tree counting

(2013) Alexandra Gavryushkina et al.   Algorithms for Molecular Biology

Coalescent inference for infectious disease: meta-analysis of hepatitis C

(2013) B. Dearlove et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Birth-death skyline plot reveals temporal changes of epidemic spread in HIV and hepatitis C virus (HCV)

(2012) T. Stadler et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Simple Epidemiological Dynamics Explain Phylogenetic Clustering of HIV from Patients with Recent Infection

(2012) Erik M. Volz et al.   PLoS Computational Biology

HIV Treatment as Prevention: Systematic Comparison of Mathematical Models of the Potential Impact of Antiretroviral Therapy on HIV Incidence in South Africa

(2012) Jeffrey W. Eaton et al.   PLOS MEDICINE

Complex Population Dynamics and the Coalescent Under Neutrality

(2011) Erik M. Volz   GENETICS

Phylogenetic and epidemic modeling of rapidly evolving infectious diseases

(2011) Denise Kühnert et al.   INFECTION GENETICS AND EVOLUTION

Estimating the Basic Reproductive Number from Viral Sequence Data

(2011) Tanja Stadler et al.   MOLECULAR BIOLOGY AND EVOLUTION

Phylodynamics of Hepatitis C Virus Subtype 2c in the Province of Córdoba, Argentina

(2011) Viviana E. Ré et al.   PLoS One

Inference for Nonlinear Epidemiological Models Using Genealogies and Time Series

(2011) David A. Rasmussen et al.   PLoS Computational Biology

Sampling-through-time in birth–death trees

(2010) Tanja Stadler   JOURNAL OF THEORETICAL BIOLOGY

Viral phylodynamics and the search for an 'effective number of infections'

(2010) S. D. W. Frost et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The pseudo-marginal approach for efficient Monte Carlo computations

(2009) Christophe Andrieu et al.   ANNALS OF STATISTICS

Cohort Profile: The Swiss HIV Cohort Study

(2009) et al.   INTERNATIONAL JOURNAL OF EPIDEMIOLOGY