Influenza A virus hemagglutinin glycosylation compensates for antibody escape fitness costs

A single mutation in the envelope protein modulates flavivirus antigenicity, stability, and pathogenesis

(2017) Leslie Goo et al.   PLoS Pathogens

Measurements of Intrahost Viral Diversity Are Extremely Sensitive to Systematic Errors in Variant Calling

(2016) John T. McCrone et al.   JOURNAL OF VIROLOGY

Accurate Measurement of the Effects of All Amino-Acid Mutations on Influenza Hemagglutinin

(2016) Michael Doud et al.   Viruses-Basel

Pathogenic Chikungunya Virus Evades B Cell Responses to Establish Persistence

(2016) David W. Hawman et al.   Cell Reports

The Mutational Robustness of Influenza A Virus

(2016) Elisa Visher et al.   PLoS Pathogens

Deep sequencing analysis of viral infection and evolution allows rapid and detailed characterization of viral mutant spectrum

(2015) Ofer Isakov et al.   BIOINFORMATICS

Primer ID Validates Template Sampling Depth and Greatly Reduces the Error Rate of Next-Generation Sequencing of HIV-1 Genomic RNA Populations

(2015) Shuntai Zhou et al.   JOURNAL OF VIROLOGY

Coordinated Evolution of Influenza A Surface Proteins

(2015) Alexey D. Neverov et al.   PLoS Genetics

Library preparation for highly accurate population sequencing of RNA viruses

(2014) Ashley Acevedo et al.   Nature Protocols

Influenza A virus nucleoprotein selectively decreases neuraminidase gene-segment packaging while enhancing viral fitness and transmissibility

(2014) Christopher B. Brooke et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comprehensive Functional Analysis of N-Linked Glycans on Ebola Virus GP1

(2014) N. J. Lennemann et al.   mBio

The inherent mutational tolerance and antigenic evolvability of influenza hemagglutinin

(2014) Bargavi Thyagarajan et al.   eLife

Defining Influenza A Virus Hemagglutinin Antigenic Drift by Sequential Monoclonal Antibody Selection

(2013) Suman R. Das et al.   Cell Host & Microbe

Mutational and fitness landscapes of an RNA virus revealed through population sequencing

(2013) Ashley Acevedo et al.   NATURE

The role of mutational robustness in RNA virus evolution

(2013) Adam S. Lauring et al.   NATURE REVIEWS MICROBIOLOGY

Genome-wide mutagenesis of influenza virus reveals unique plasticity of the hemagglutinin and NS1 proteins

(2013) N. S. Heaton et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Glycosylations in the Globular Head of the Hemagglutinin Protein Modulate the Virulence and Antigenic Properties of the H1N1 Influenza Viruses

(2013) R. A. Medina et al.   Science Translational Medicine

PANDAseq: paired-end assembler for illumina sequences

(2012) Andre P Masella et al.   BMC BIOINFORMATICS

Clonal Interference in the Evolution of Influenza

(2012) N. Strelkowa et al.   GENETICS

Effect of Priming with H1N1 Influenza Viruses of Variable Antigenic Distances on Challenge with 2009 Pandemic H1N1 Virus

(2012) Christopher D. O'Donnell et al.   JOURNAL OF VIROLOGY

Btrim: A fast, lightweight adapter and quality trimming program for next-generation sequencing technologies

(2011) Yong Kong   GENOMICS

Influenza A Virus Hemagglutinin Antibody Escape Promotes Neuraminidase Antigenic Variation and Drug Resistance

(2011) Scott E. Hensley et al.   PLoS One

Accurate sampling and deep sequencing of the HIV-1 protease gene using a Primer ID

(2011) C. B. Jabara et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

Prevalence of Epistasis in the Evolution of Influenza A Surface Proteins

(2011) Sergey Kryazhimskiy et al.   PLoS Genetics

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Monoclonal antibodies specific for discontinuous epitopes direct refolding of influenza A virus hemagglutinin

(2010) Jonathan W. Yewdell   MOLECULAR IMMUNOLOGY

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Single-Reaction Genomic Amplification Accelerates Sequencing and Vaccine Production for Classical and Swine Origin Human Influenza A Viruses

(2009) B. Zhou et al.   JOURNAL OF VIROLOGY

Hemagglutinin Receptor Binding Avidity Drives Influenza A Virus Antigenic Drift

(2009) S. E. Hensley et al.   SCIENCE

N-glycan structures: recognition and processing in the ER

(2009) Markus Aebi et al.   TRENDS IN BIOCHEMICAL SCIENCES

Homologous Recombination Is Very Rare or Absent in Human Influenza A Virus

(2008) M. F. Boni et al.   JOURNAL OF VIROLOGY