Differentiation of acute from chronic hepatitis C virus infection by nonstructural 5B deep sequencing: A population-level tool for incidence estimation

Inference with viral quasispecies diversity indices: clonal and NGS approaches

(2014) Josep Gregori et al.   BIOINFORMATICS

Therapy of Hepatitis C — Back to the Future

(2014) T. Jake Liang et al.   NEW ENGLAND JOURNAL OF MEDICINE

Full-length haplotype reconstruction to infer the structure of heterogeneous virus populations

(2014) Francesca Di Giallonardo et al.   NUCLEIC ACIDS RESEARCH

Ultra-Deep Pyrosequencing (UDPS) Data Treatment to Study Amplicon HCV Minor Variants

(2014) Josep Gregori et al.   PLoS One

A comparative study of ultra-deep pyrosequencing and cloning to quantitatively analyze the viral quasispecies using hepatitis B virus infection as a model

(2013) Clara Ramírez et al.   ANTIVIRAL RESEARCH

Eradication of hepatitis C infection: The importance of targeting people who inject drugs

(2013) Margaret Hellard et al.   HEPATOLOGY

The effects of female sex, viral genotype, andIL28Bgenotype on spontaneous clearance of acute hepatitis C virus infection

(2013) Jason Grebely et al.   HEPATOLOGY

Hepatitis C virus treatment for prevention among people who inject drugs: Modeling treatment scale-up in the age of direct-acting antivirals

(2013) Natasha K. Martin et al.   HEPATOLOGY

Association Between Sustained Virological Response and All-Cause Mortality Among Patients With Chronic Hepatitis C and Advanced Hepatic Fibrosis

(2013) Adriaan J. van der Meer et al.   JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION

Comparison of Next-Generation Sequencing and Clone-Based Sequencing in Analysis of Hepatitis B Virus Reverse Transcriptase Quasispecies Heterogeneity

(2013) L. Gong et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Developing High-Throughput HIV Incidence Assay with Pyrosequencing Platform

(2013) S. Y. Park et al.   JOURNAL OF VIROLOGY

UPARSE: highly accurate OTU sequences from microbial amplicon reads

(2013) Robert C Edgar   NATURE METHODS

Transmission and evolution of hepatitis C virus in HCV seroconverters in HIV infected subjects

(2013) Chengli Shen et al.   VIROLOGY

Empirical validation of viral quasispecies assembly algorithms: state-of-the-art and challenges

(2013) Mattia C. F. Prosperi et al.   Scientific Reports

Benchmarking of viral haplotype reconstruction programmes: an overview of the capacities and limitations of currently available programmes

(2012) M. Schirmer et al.   BRIEFINGS IN BIOINFORMATICS

Global epidemiology of hepatitis C virus infection: New estimates of age-specific antibody to HCV seroprevalence

(2012) Khayriyyah Mohd Hanafiah et al.   HEPATOLOGY

Constraints on Viral Evolution during Chronic Hepatitis C Virus Infection Arising from a Common-Source Exposure

(2012) J. R. Bailey et al.   JOURNAL OF VIROLOGY

Viral Quasispecies Evolution

(2012) E. Domingo et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

CD8+ T-Cell Response Promotes Evolution of Hepatitis C Virus Nonstructural Proteins

(2011) Marianne Ruhl et al.   GASTROENTEROLOGY

Temporal Variations in the Hepatitis C Virus Intrahost Population during Chronic Infection

(2011) S. Ramachandran et al.   JOURNAL OF VIROLOGY

Genetic Diversity of Near Genome-Wide Hepatitis C Virus Sequences during Chronic Infection: Evidence for Protein Structural Conservation Over Time

(2011) Hui Li et al.   PLoS One

Sequential Bottlenecks Drive Viral Evolution in Early Acute Hepatitis C Virus Infection

(2011) Rowena A. Bull et al.   PLoS Pathogens

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Effect of immune pressure on hepatitis C virus evolution: Insights from a single-source outbreak

(2010) Shahzma Merani et al.   HEPATOLOGY

Hepatitis C Virus Transmission Bottlenecks Analyzed by Deep Sequencing

(2010) G. P. Wang et al.   JOURNAL OF VIROLOGY

A novel duplex real-time reverse transcriptase-polymerase chain reaction assay for the detection of hepatitis C viral RNA with armored RNA as internal control

(2010) Shuang Meng et al.   Virology Journal

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Hepatitis C virus versus innate and adaptive immune responses: a tale of coevolution and coexistence

(2009) Barbara Rehermann   JOURNAL OF CLINICAL INVESTIGATION

Coordinated evolution of the hepatitis C virus

(2008) D. S. Campo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA