Genetic diversity among pandemic 2009 influenza viruses isolated from a transmission chain

Identification of novel conserved functional motifs across most Influenza A viral strains

(2013) Mahmoud ElHefnawi et al.   Virology Journal

A simple method for the parallel deep sequencing of full influenza A genomes

(2011) Marie-Louise Kampmann et al.   JOURNAL OF VIROLOGICAL METHODS

A framework for variation discovery and genotyping using next-generation DNA sequencing data

(2011) Mark A DePristo et al.   NATURE GENETICS

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

Effect of the Neuraminidase Mutation H274Y Conferring Resistance to Oseltamivir on the Replicative Capacity and Virulence of Old and Recent Human Influenza A(H1N1) Viruses

(2010) Mariana Baz et al.   JOURNAL OF INFECTIOUS DISEASES

Deep Sequencing Reveals Mixed Infection with 2009 Pandemic Influenza A (H1N1) Virus Strains and the Emergence of Oseltamivir Resistance

(2010) Elodie Ghedin et al.   JOURNAL OF INFECTIOUS DISEASES

Large-Scale Sequence Analysis of Hemagglutinin of Influenza A Virus Identifies Conserved Regions Suitable for Targeting an Anti-Viral Response

(2010) Leepakshi Sahini et al.   PLoS One

Characterization of Quasispecies of Pandemic 2009 Influenza A Virus (A/H1N1/2009) by De Novo Sequencing Using a Next-Generation DNA Sequencer

(2010) Makoto Kuroda et al.   PLoS One

A Metagenomic Analysis of Pandemic Influenza A (2009 H1N1) Infection in Patients from North America

(2010) Alexander L. Greninger et al.   PLoS One

Permissive Secondary Mutations Enable the Evolution of Influenza Oseltamivir Resistance

(2010) J. D. Bloom et al.   SCIENCE

Variations in the Hemagglutinin of the 2009 H1N1 Pandemic Virus: Potential for Strains with Altered Virulence Phenotype?

(2010) Jianqiang Ye et al.   PLoS Pathogens

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

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

Origins and evolutionary genomics of the 2009 swine-origin H1N1 influenza A epidemic

(2009) Gavin J. D. Smith et al.   NATURE

The Feasibility of Using High Resolution Genome Sequencing of Influenza A Viruses to Detect Mixed Infections and Quasispecies

(2009) Muthannan A. Ramakrishnan et al.   PLoS One

Characterization of the Influenza A H5N1 Viruses of the 2008-09 Outbreaks in India Reveals a Third Introduction and Possible Endemicity

(2009) Alok K. Chakrabarti et al.   PLoS One

Examining the hemagglutinin subtype diversity among wild duck-origin influenza A viruses using ethanol-fixed cloacal swabs and a novel RT-PCR method

(2008) Ruixue Wang et al.   VIROLOGY

The evolution of human influenza A viruses from 1999 to 2006 - a complete genome study

(2008) Karoline Bragstad et al.   Virology Journal