Integrating genealogical and dynamical modelling to infer escape and reversion rates in HIV epitopes

HIV and HLA Class I: An Evolving Relationship

(2012) Philip J.R. Goulder et al.   IMMUNITY

Bayesian Phylogenetics with BEAUti and the BEAST 1.7

(2012) Alexei J. Drummond et al.   MOLECULAR BIOLOGY AND EVOLUTION

Rates of coalescence for common epidemiological models at equilibrium

(2011) K. Koelle et al.   Journal of the Royal Society Interface

Inference for Nonlinear Epidemiological Models Using Genealogies and Time Series

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

Reconstructing disease outbreaks from genetic data: a graph approach

(2010) T Jombart et al.   HEREDITY

Human immunodeficiency virus type 1 long-term non-progressors: the viral, genetic and immunological basis for disease non-progression

(2010) K. Poropatich et al.   JOURNAL OF GENERAL VIROLOGY

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

Modelling the Evolution and Spread of HIV Immune Escape Mutants

(2010) Helen R. Fryer et al.   PLoS Pathogens

Phylodynamics of Infectious Disease Epidemics

(2009) Erik M. Volz et al.   GENETICS

The first T cell response to transmitted/founder virus contributes to the control of acute viremia in HIV-1 infection

(2009) Nilu Goonetilleke et al.   JOURNAL OF EXPERIMENTAL MEDICINE

On incomplete sampling under birth–death models and connections to the sampling-based coalescent

(2009) Tanja Stadler   JOURNAL OF THEORETICAL BIOLOGY

Evolutionary analysis of the dynamics of viral infectious disease

(2009) Oliver G. Pybus et al.   NATURE REVIEWS GENETICS

The conditioned reconstructed process

(2008) Tanja Gernhard   JOURNAL OF THEORETICAL BIOLOGY