Viral resistance burden and APOBEC editing correlate with virological response in heavily treatment-experienced people living with multi-drug resistant HIV

Presence of HIV-1 G-to-A mutations linked to APOBEC editing is more prevalent in non-B HIV-1 subtypes and is associated with lower HIV-1 reservoir

(2021) Basma Abdi et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Shall i trust the report? Variable performance of Sanger sequencing revealed by deep sequencing on HIV drug resistance mutation detection

(2020) Nan-Yu Chen et al.   INTERNATIONAL JOURNAL OF INFECTIOUS DISEASES

Analysis of unusual and signature APOBEC-mutations in HIV-1 pol next-generation sequences

(2020) Philip L. Tzou et al.   PLoS One

Are We Ready for NGS HIV Drug Resistance Testing? The Second “Winnipeg Consensus” Symposium

(2020) Hezhao Ji et al.   Viruses-Basel

Dolutegravir plus lamivudine for maintenance of HIV viral suppression in adults with and without historical resistance to lamivudine: 48-week results of a non-randomized, pilot clinical trial (ART-PRO)

(2020) Rosa De Miguel et al.   EBioMedicine

Next-Generation Sequencing for HIV Drug Resistance Testing: Laboratory, Clinical, and Implementation Considerations

(2020) Santiago Ávila-Ríos et al.   Viruses-Basel

Multi-Laboratory Comparison of Next-Generation to Sanger-Based Sequencing for HIV-1 Drug Resistance Genotyping

(2020) Neil T. Parkin et al.   Viruses-Basel

Burden of disease in PLWH harboring a multidrug resistant virus: data from PRESTIGIO Registry

(2020) Laura Galli et al.   Open Forum Infectious Diseases

Quantification of HIV-DNA and residual viremia in patients starting ART by droplet digital PCR: Their dynamic decay and correlations with immunological parameters and virological success

(2019) Claudia Alteri et al.   JOURNAL OF CLINICAL VIROLOGY

Low-Abundance Drug-Resistant HIV-1 Variants in Antiretroviral Drug-Naive Individuals: A Systematic Review of Detection Methods, Prevalence, and Clinical Impact

(2019) Herbert A Mbunkah et al.   JOURNAL OF INFECTIOUS DISEASES

Human Immunodeficiency Virus Drug Resistance: 2018 Recommendations of the International Antiviral Society–USA Panel

(2018) Huldrych F Günthard et al.   CLINICAL INFECTIOUS DISEASES

Comparison of an In Vitro Diagnostic Next-Generation Sequencing Assay with Sanger Sequencing for HIV-1 Genotypic Resistance Testing

(2018) Philip L. Tzou et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Analysis of drug resistance mutations in whole blood DNA from HIV-1 infected patients by single genome and ultradeep sequencing analysis

(2018) Alma Sotillo et al.   JOURNAL OF VIROLOGICAL METHODS

Sanger and Next Generation Sequencing Approaches to Evaluate HIV-1 Virus in Blood Compartments

(2018) Andrea Arias et al.   International Journal of Environmental Research and Public Health

Clinically relevant thresholds for ultrasensitive HIV drug resistance testing: a multi-country nested case-control study

(2018) Seth C Inzaule et al.   Lancet HIV

RNA and DNA Sanger sequencing versus next-generation sequencing for HIV-1 drug resistance testing in treatment-naive patients

(2017) E K Alidjinou et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

HIV-1 DNA ultra-deep sequencing analysis at initiation of the dual therapy dolutegravir + lamivudine in the maintenance DOLULAM pilot study

(2017) Charlotte Charpentier et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Deep sequencing of HIV-1 reverse transcripts reveals the multifaceted antiviral functions of APOBEC3G

(2017) Darja Pollpeter et al.   Nature Microbiology

Contribution of APOBEC3G/F activity to the development of low-abundance drug-resistant human immunodeficiency virus type 1 variants

(2016) M. Noguera-Julian et al.   CLINICAL MICROBIOLOGY AND INFECTION

Deep Sequencing of HIV-1 RNA and DNA in Newly Diagnosed Patients with Baseline Drug Resistance Showed No Indications for Hidden Resistance and Is Biased by Strong Interference of Hypermutation

(2016) Kenny Dauwe et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Genotypic resistance test in proviral DNA can identify resistance mutations never detected in historical genotypic test in patients with low level or undetectable HIV-RNA

(2016) Mauro Zaccarelli et al.   JOURNAL OF CLINICAL VIROLOGY

Proviral DNA as a Target for HIV-1 Resistance Analysis

(2015) Nadine L�bke et al.   INTERVIROLOGY

Identifying Recent HIV Infections: From Serological Assays to Genomics

(2015) Sikhulile Moyo et al.   Viruses-Basel

Deep Sequencing of HIV: Clinical and Research Applications

(2014) Shiven B. Chabria et al.   Annual Review of Genomics and Human Genetics

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Improved Prediction of Salvage Antiretroviral Therapy Outcomes Using Ultrasensitive HIV-1 Drug Resistance Testing

(2014) Christian Pou et al.   CLINICAL INFECTIOUS DISEASES

Antiretroviral Therapy

(2014) Katya R. Calvo et al.   INFECTIOUS DISEASE CLINICS OF NORTH AMERICA

Contribution of Human Immunodeficiency Virus Type 1 Minority Variants to Reduced Drug Susceptibility in Patients on an Integrase Strand Transfer Inhibitor-Based Therapy

(2014) Richard M. Gibson et al.   PLoS One

PEAR: a fast and accurate Illumina Paired-End reAd mergeR

(2013) J. Zhang et al.   BIOINFORMATICS

Geno2pheno[454]: A Web Server for the Prediction of HIV-1 Coreceptor Usage from Next-Generation Sequencing Data

(2012) Alexander Thielen et al.   INTERVIROLOGY

APOBEC3G-Induced Hypermutation of Human Immunodeficiency Virus Type-1 Is Typically a Discrete “All or Nothing” Phenomenon

(2012) Andrew E. Armitage et al.   PLoS Genetics

Historical HIV-RNA resistance test results are more informative than proviral DNA genotyping in cases of suppressed or residual viraemia

(2011) M. Wirden et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Partially active HIV-1 Vif alleles facilitate viral escape from specific antiretrovirals

(2010) Slim Fourati et al.   AIDS

Deep Sequencing to Infer HIV-1 Co-Receptor Usage: Application to Three Clinical Trials of Maraviroc in Treatment-Experienced Patients

(2010) L. C. Swenson et al.   JOURNAL OF INFECTIOUS DISEASES

APOBEC3G induces a hypermutation gradient: purifying selection at multiple steps during HIV-1 replication results in levels of G-to-A mutations that are high in DNA, intermediate in cellular viral RNA, and low in virion RNA

(2009) Rebecca A Russell et al.   Retrovirology

HIV-1 DNA for the measurement of the HIV reservoir is predictive of disease progression in seroconverters whatever the mode of result expression is

(2008) Véronique Avettand-Fènoël et al.   JOURNAL OF CLINICAL VIROLOGY