Genome-to-genome analysis highlights the effect of the human innate and adaptive immune systems on the hepatitis C virus

Cellular Mechanism for Impaired Hepatitis C Virus Clearance by Interferon Associated with IFNL3 Gene Polymorphisms Relates to Intrahepatic Interferon-λ Expression

(2016) Pauline Ferraris et al.   AMERICAN JOURNAL OF PATHOLOGY

Enhancement of the Replication of Hepatitis C Virus Replicons of Genotypes 1 to 4 by Manipulation of CpG and UpA Dinucleotide Frequencies and Use of Cell Lines Expressing SECL14L2 for Antiviral Resistance Testing

(2016) Jeroen Witteveldt et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Prevalence of Resistance-Associated Substitutions in HCV NS5A, NS5B, or NS3 and Outcomes of Treatment With Ledipasvir and Sofosbuvir

(2016) Christoph Sarrazin et al.   GASTROENTEROLOGY

Interferon lambda 4 variant rs12979860 is not associated with RAV NS5A Y93H in hepatitis C virus genotype 3a

(2016) Vincent Pedergnana et al.   HEPATOLOGY

Comparison of Next-Generation Sequencing Technologies for Comprehensive Assessment of Full-Length Hepatitis C Viral Genomes

(2016) Emma Thomson et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Rethinking the old antiviral drug moroxydine: Discovery of novel analogues as anti-hepatitis C virus (HCV) agents

(2015) Andrea Magri et al.   BIOORGANIC & MEDICINAL CHEMISTRY LETTERS

Efficacy of Sofosbuvir Plus Ribavirin With or Without Peginterferon-Alfa in Patients With Hepatitis C Virus Genotype 3 Infection and Treatment-Experienced Patients With Cirrhosis and Hepatitis C Virus Genotype 2 Infection

(2015) Graham R. Foster et al.   GASTROENTEROLOGY

The broad assessment of HCV genotypes 1 and 3 antigenic targets reveals limited cross-reactivity with implications for vaccine design

(2015) Annette von Delft et al.   GUT

Interferon lambda 4 genotypes and resistance-associated variants in patients infected with hepatitis C virus genotypes 1 and 3

(2015) Kai-Henrik Peiffer et al.   HEPATOLOGY

Mechanisms of Hepatitis C Viral Resistance to Direct Acting Antivirals

(2015) Asma Ahmed et al.   Viruses-Basel

Second-generation PLINK: rising to the challenge of larger and richer datasets

(2015) Christopher C Chang et al.   GigaScience

Review article: HCV genotype 3 - the new treatment challenge

(2014) J. Ampuero et al.   ALIMENTARY PHARMACOLOGY & THERAPEUTICS

QuasR: quantification and annotation of short reads in R

(2014) Dimos Gaidatzis et al.   BIOINFORMATICS

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

Interferon Lambda Alleles Predict Innate Antiviral Immune Responses and Hepatitis C Virus Permissiveness

(2014) Timothy Sheahan et al.   Cell Host & Microbe

Global distribution and prevalence of hepatitis C virus genotypes

(2014) Jane P. Messina et al.   HEPATOLOGY

Innate and adaptive immune responses in HCV infections

(2014) Markus H. Heim et al.   JOURNAL OF HEPATOLOGY

Allele frequency net 2015 update: new features for HLA epitopes, KIR and disease and HLA adverse drug reaction associations

(2014) Faviel F. González-Galarza et al.   NUCLEIC ACIDS RESEARCH

A human vaccine strategy based on chimpanzee adenoviral and MVA vectors that primes, boosts, and sustains functional HCV-specific T cell memory

(2014) L. Swadling et al.   Science Translational Medicine

Reduced IFNλ4 activity is associated with improved HCV clearance and reduced expression of interferon-stimulated genes

(2014) Ewa Terczyńska-Dyla et al.   Nature Communications

Improved workflows for high throughput library preparation using the transposome-based nextera system

(2013) Sarah Lamble et al.   BMC BIOTECHNOLOGY

Expanded classification of hepatitis C virus into 7 genotypes and 67 subtypes: Updated criteria and genotype assignment web resource

(2013) Donald B. Smith et al.   HEPATOLOGY

IL28B expression depends on a novel TT/-G polymorphism which improves HCV clearance prediction

(2013) Stéphanie Bibert et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Hepatitis C virus infection alters lipid metabolism depending on IL28B polymorphism and viral genotype and modulates gene expressionin vivoandin vitro

(2013) Á. Rojas et al.   JOURNAL OF VIRAL HEPATITIS

Treatment of hepatitis C virus genotype 3-infection

(2013) Stanislas Pol et al.   LIVER INTERNATIONAL

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

A variant upstream of IFNL3 (IL28B) creating a new interferon gene IFNL4 is associated with impaired clearance of hepatitis C virus

(2013) Ludmila Prokunina-Olsson et al.   NATURE GENETICS

Sofosbuvir for Hepatitis C Genotype 2 or 3 in Patients without Treatment Options

(2013) Ira M. Jacobson et al.   NEW ENGLAND JOURNAL OF MEDICINE

Sofosbuvir for Previously Untreated Chronic Hepatitis C Infection

(2013) Eric Lawitz et al.   NEW ENGLAND JOURNAL OF MEDICINE

HIBAG—HLA genotype imputation with attribute bagging

(2013) X Zheng et al.   PHARMACOGENOMICS JOURNAL

Imputing Amino Acid Polymorphisms in Human Leukocyte Antigens

(2013) Xiaoming Jia et al.   PLoS One

Multi-Population Classical HLA Type Imputation

(2013) Alexander Dilthey et al.   PLoS Computational Biology

De novo assembly of highly diverse viral populations

(2012) Xiao Yang et al.   BMC GENOMICS

Genome-Wide Association Study Identifies Variants Associated With Progression of Liver Fibrosis From HCV Infection

(2012) Etienne Patin et al.   GASTROENTEROLOGY

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

(2012) Khayriyyah Mohd Hanafiah et al.   HEPATOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Accounting for multiple comparisons in a genome-wide association study (GWAS)

(2011) Randall C Johnson et al.   BMC GENOMICS

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

(2011) Marianne Ruhl et al.   GASTROENTEROLOGY

Molecular footprints reveal the impact of the protective HLA-A*03 allele in hepatitis C virus infection

(2011) K. Fitzmaurice et al.   GUT

Human leukocyte antigen B27 selects for rare escape mutations that significantly impair hepatitis C virus replication and require compensatory mutations

(2011) Christoph Neumann-Haefelin et al.   HEPATOLOGY

IL28B alleles associated with poor hepatitis C virus (HCV) clearance protect against inflammation and fibrosis in patients infected with non-1 HCV genotypes

(2011) Pierre-Yves Bochud et al.   HEPATOLOGY

Hepatitis C virus resistance to protease inhibitors

(2011) Philippe Halfon et al.   JOURNAL OF HEPATOLOGY

Future treatment of chronic hepatitis C with direct acting antivirals: is resistance important?

(2011) Philippe Halfon et al.   LIVER INTERNATIONAL

Interleukin-28B Polymorphism Improves Viral Kinetics and Is the Strongest Pretreatment Predictor of Sustained Virologic Response in Genotype 1 Hepatitis C Virus

(2010) Alexander J. Thompson et al.   GASTROENTEROLOGY

Genetic Variation in IL28B Is Associated With Chronic Hepatitis C and Treatment Failure: A Genome-Wide Association Study

(2010) Andri Rauch et al.   GASTROENTEROLOGY

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

(2010) Shahzma Merani et al.   HEPATOLOGY

Divergent adaptation of hepatitis C virus genotypes 1 and 3 to human leukocyte antigen-restricted immune pressure

(2009) Andri Rauch et al.   HEPATOLOGY

Genetic variation in IL28B predicts hepatitis C treatment-induced viral clearance

(2009) Dongliang Ge et al.   NATURE

Genetic variation in IL28B and spontaneous clearance of hepatitis C virus

(2009) David L. Thomas et al.   NATURE

IL28B is associated with response to chronic hepatitis C interferon-α and ribavirin therapy

(2009) Vijayaprakash Suppiah et al.   NATURE GENETICS

Genome-wide association of IL28B with response to pegylated interferon-α and ribavirin therapy for chronic hepatitis C

(2009) Yasuhito Tanaka et al.   NATURE GENETICS

Estimation of the multiple testing burden for genomewide association studies of nearly all common variants

(2008) Itsik Pe'er et al.   GENETIC EPIDEMIOLOGY

Regulation of Hepatitis C Virion Production via Phosphorylation of the NS5A Protein

(2008) Timothy L. Tellinghuisen et al.   PLoS Pathogens