Using High-Throughput Sequencing to Leverage Surveillance of Genetic Diversity and Oseltamivir Resistance: A Pilot Study during the 2009 Influenza A(H1N1) Pandemic

Pair-barcode high-throughput sequencing for large-scale multiplexed sample analysis

(2012) Jing Tu et al.   BMC GENOMICS

Microfluidic Amplification as a Tool for Massive Parallel Sequencing of the Familial Hypercholesterolemia Genes

(2012) S. Hollants et al.   CLINICAL CHEMISTRY

Presence of Oseltamivir-Resistant Pandemic A/H1N1 Minor Variants Before Drug Therapy With Subsequent Selection and Transmission

(2012) Elodie Ghedin et al.   JOURNAL OF INFECTIOUS DISEASES

Estimated global mortality associated with the first 12 months of 2009 pandemic influenza A H1N1 virus circulation: a modelling study

(2012) Fatimah S Dawood et al.   LANCET INFECTIOUS DISEASES

Low-Cost Ultra-Wide Genotyping Using Roche/454 Pyrosequencing for Surveillance of HIV Drug Resistance

(2012) Dawn M. Dudley et al.   PLoS One

Read length versus Depth of Coverage for Viral Quasispecies Reconstruction

(2012) Osvaldo Zagordi et al.   PLoS One

Airborne Transmission of Influenza A/H5N1 Virus Between Ferrets

(2012) S. Herfst et al.   SCIENCE

Systematic exploration of error sources in pyrosequencing flowgram data

(2011) S. Balzer et al.   BIOINFORMATICS

The potential for multidrug-resistant influenza

(2011) Erhard van der Vries et al.   CURRENT OPINION IN INFECTIOUS DISEASES

Targeted metagenomics: a high-resolution metagenomics approach for specific gene clusters in complex microbial communities

(2011) Hikaru Suenaga   ENVIRONMENTAL MICROBIOLOGY

Applications of Next-Generation Sequencing Technologies to Diagnostic Virology

(2011) Luisa Barzon et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

'Sentinel' mutations in standard population sequencing can predict the presence of HIV-1 reverse transcriptase major mutations detectable only by ultra-deep pyrosequencing

(2011) C. Alteri et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Emerging oseltamivir resistance in seasonal and pandemic influenza A/H1N1

(2011) Christian Renaud et al.   JOURNAL OF CLINICAL VIROLOGY

Extensive Geographical Mixing of 2009 Human H1N1 Influenza A Virus in a Single University Community

(2011) E. C. Holmes et al.   JOURNAL OF VIROLOGY

Ultrasensitive detection of rare mutations using next-generation targeted resequencing

(2011) Patrick Flaherty et al.   NUCLEIC ACIDS RESEARCH

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

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

Mutation Analysis of 2009 Pandemic Influenza A(H1N1) Viruses Collected in Japan during the Peak Phase of the Pandemic

(2011) Jean-Étienne Morlighem et al.   PLoS One

Large Scale Library Generation for High Throughput Sequencing

(2011) Erik Borgström et al.   PLoS One

Influenza Drug Resistance

(2011) Andrés Pizzorno et al.   SEMINARS IN RESPIRATORY AND CRITICAL CARE MEDICINE

Prevalence of Epistasis in the Evolution of Influenza A Surface Proteins

(2011) Sergey Kryazhimskiy et al.   PLoS Genetics

Characterizing the Epidemiology of the 2009 Influenza A/H1N1 Pandemic in Mexico

(2011) Gerardo Chowell et al.   PLOS MEDICINE

Comprehensive assessment of 2009 pandemic influenza A (H1N1) virus drug susceptibility in vitro

(2010) Larisa V Gubareva et al.   ANTIVIRAL THERAPY

Next-generation sequencing as a tool to study microbial evolution

(2010) MICHAEL A. BROCKHURST et al.   MOLECULAR ECOLOGY

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

A scalable, fully automated process for construction of sequence-ready barcoded libraries for 454

(2010) Niall J Lennon et al.   GENOME BIOLOGY

DNA Sudoku--harnessing high-throughput sequencing for multiplexed specimen analysis

(2009) Y. Erlich et al.   GENOME RESEARCH

Infections With Oseltamivir-Resistant Influenza A(H1N1) Virus in the United States

(2009) Nila J. Dharan   JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION

RNA virus genomics: a world of possibilities

(2009) Edward C. Holmes   JOURNAL OF CLINICAL INVESTIGATION

How to maintain surveillance for novel influenza A H1N1 when there are too many cases to count

(2009) Marc Lipsitch et al.   LANCET

Direct Metagenomic Detection of Viral Pathogens in Nasal and Fecal Specimens Using an Unbiased High-Throughput Sequencing Approach

(2009) Shota Nakamura et al.   PLoS One

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

Antigenic and Genetic Characteristics of Swine-Origin 2009 A(H1N1) Influenza Viruses Circulating in Humans

(2009) R. J. Garten et al.   SCIENCE

Surveillance for Neuraminidase Inhibitor Resistance among Human Influenza A and B Viruses Circulating Worldwide from 2004 to 2008

(2008) T. G. Sheu et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Minority Human Immunodeficiency Virus Type 1 Variants in Antiretroviral-Naive Persons with Reverse Transcriptase Codon 215 Revertant Mutations

(2008) Y. Mitsuya et al.   JOURNAL OF VIROLOGY

Enzymatic Properties of the Neuraminidase of Seasonal H1N1 Influenza Viruses Provide Insights for the Emergence of Natural Resistance to Oseltamivir

(2008) Marie-Anne Rameix-Welti et al.   PLoS Pathogens