The effects of a deleterious mutation load on patterns of influenza A/H3N2's antigenic evolution in humans

Interval Between Infections and Viral Hierarchy Are Determinants of Viral Interference Following Influenza Virus Infection in a Ferret Model

(2015) Karen L. Laurie et al.   JOURNAL OF INFECTIOUS DISEASES

Global circulation patterns of seasonal influenza viruses vary with antigenic drift

(2015) Trevor Bedford et al.   NATURE

Pathogen evolution and the immunological niche

(2014) Sarah Cobey   Annals of the New York Academy of Sciences

Prediction is worth a shot

(2014) Katia Koelle et al.   NATURE

A predictive fitness model for influenza

(2014) Marta Łuksza et al.   NATURE

Unifying Viral Genetics and Human Transportation Data to Predict the Global Transmission Dynamics of Human Influenza H3N2

(2014) Philippe Lemey et al.   PLoS Pathogens

Integrating influenza antigenic dynamics with molecular evolution

(2014) Trevor Bedford et al.   eLife

Predicting evolution from the shape of genealogical trees

(2014) Richard A Neher et al.   eLife

The evolutionary dynamics of receptor binding avidity in influenza A: a mathematical model for a new antigenic drift hypothesis

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

Substitutions Near the Receptor Binding Site Determine Major Antigenic Change During Influenza Virus Evolution

(2013) B. F. Koel et al.   SCIENCE

A Multi-scale Analysis of Influenza A Virus Fitness Trade-offs due to Temperature-dependent Virus Persistence

(2013) Andreas Handel et al.   PLoS Computational Biology

Components of Selection in the Evolution of the Influenza Virus: Linkage Effects Beat Inherent Selection

(2013) Christopher J. R. Illingworth et al.   PLoS Pathogens

The Roles of Competition and Mutation in Shaping Antigenic and Genetic Diversity in Influenza

(2013) Daniel Zinder et al.   PLoS Pathogens

Stability-mediated epistasis constrains the evolution of an influenza protein

(2013) Lizhi Ian Gong et al.   eLife

Canalization of the evolutionary trajectory of the human influenza virus

(2012) Trevor Bedford et al.   BMC BIOLOGY

Clonal Interference in the Evolution of Influenza

(2012) N. Strelkowa et al.   GENETICS

Dynamic Mutation-Selection Balance as an Evolutionary Attractor

(2012) S. Goyal et al.   GENETICS

Bayesian Phylogenetics with BEAUti and the BEAST 1.7

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

Evolution of the receptor binding properties of the influenza A(H3N2) hemagglutinin

(2012) Y. P. Lin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Distribution of fixed beneficial mutations and the rate of adaptation in asexual populations

(2012) B. H. Good et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Strength and tempo of selection revealed in viral gene genealogies

(2011) Trevor Bedford et al.   BMC EVOLUTIONARY BIOLOGY

The Structure of Genealogies in the Presence of Purifying Selection: A Fitness-Class Coalescent

(2011) Aleksandra M. Walczak et al.   GENETICS

Emergent Neutrality in Adaptive Asexual Evolution

(2011) Stephan Schiffels et al.   GENETICS

The Genomic Rate of Molecular Adaptation of the Human Influenza A Virus

(2011) Samir Bhatt et al.   MOLECULAR BIOLOGY AND EVOLUTION

Fitness costs limit influenza A virus hemagglutinin glycosylation as an immune evasion strategy

(2011) S. R. Das et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Speed of Evolution in Large Asexual Populations

(2010) Su-Chan Park et al.   JOURNAL OF STATISTICAL PHYSICS

A two-tiered model for simulating the ecological and evolutionary dynamics of rapidly evolving viruses, with an application to influenza

(2010) K. Koelle et al.   Journal of the Royal Society Interface

Norovirus GII.4 Strain Antigenic Variation

(2010) L. C. Lindesmith et al.   JOURNAL OF VIROLOGY

Viral Mutation Rates

(2010) R. Sanjuan et al.   JOURNAL OF VIROLOGY

Beneficial mutations and the dynamics of adaptation in asexual populations

(2010) P. D. Sniegowski et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Mutational fitness effects in RNA and single-stranded DNA viruses: common patterns revealed by site-directed mutagenesis studies

(2010) R. Sanjuan   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Permissive Secondary Mutations Enable the Evolution of Influenza Oseltamivir Resistance

(2010) J. D. Bloom et al.   SCIENCE

Estimates of the Transmissibility of the 1968 (Hong Kong) Influenza Pandemic: Evidence of Increased Transmissibility Between Successive Waves

(2009) Charlotte Jackson et al.   AMERICAN JOURNAL OF EPIDEMIOLOGY

Recent Human Influenza A/H3N2 Virus Evolution Driven by Novel Selection Factors in Addition to Antigenic Drift

(2009) Matthew J. Memoli et al.   JOURNAL OF INFECTIOUS DISEASES

The Persistent Legacy of the 1918 Influenza Virus

(2009) David M. Morens et al.   NEW ENGLAND JOURNAL OF MEDICINE

Influenza A Gradual and Epochal Evolution: Insights from Simple Models

(2009) Sébastien Ballesteros et al.   PLoS One

Hemagglutinin Receptor Binding Avidity Drives Influenza A Virus Antigenic Drift

(2009) S. E. Hensley et al.   SCIENCE

Understanding the dynamics of rapidly evolving pathogens through modeling the tempo of antigenic change: Influenza as a case study

(2009) Katia Koelle et al.   Epidemics

Inferring Stabilizing Mutations from Protein Phylogenies: Application to Influenza Hemagglutinin

(2009) Jesse D. Bloom et al.   PLoS Computational Biology

Positive selection operates continuously on hemagglutinin during evolution of H3N2 human influenza A virus

(2008) Yoshiyuki Suzuki   GENE

Norovirus pathogenesis: mechanisms of persistence and immune evasion in human populations

(2008) Eric F. Donaldson et al.   IMMUNOLOGICAL REVIEWS

Heterosubtypic immunity to influenza A virus: where do we stand?

(2008) Kristie M. Grebe et al.   MICROBES AND INFECTION

The Global Circulation of Seasonal Influenza A (H3N2) Viruses

(2008) C. A. Russell et al.   SCIENCE

Mechanisms of GII.4 Norovirus Persistence in Human Populations

(2008) Lisa C Lindesmith et al.   PLOS MEDICINE

Changing Selective Pressure during Antigenic Changes in Human Influenza H3

(2008) Benjamin P. Blackburne et al.   PLoS Pathogens

The traveling-wave approach to asexual evolution: Muller's ratchet and speed of adaptation

(2007) Igor M. Rouzine et al.   THEORETICAL POPULATION BIOLOGY