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

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

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

MinVar: A rapid and versatile tool for HIV-1 drug resistance genotyping by deep sequencing

(2017) Michael Huber et al.   JOURNAL OF VIROLOGICAL METHODS

Deep sequencing for HIV-1 clinical management

(2017) Maria Casadellà et al.   VIRUS RESEARCH

Future technologies for monitoring HIV drug resistance and cure

(2017) Urvi M. Parikh et al.   Current Opinion in HIV and AIDS

Low-Frequency Drug Resistance in HIV-Infected Ugandans on Antiretroviral Treatment Is Associated with Regimen Failure

(2016) Fred Kyeyune et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

HIV-1 drug resistance mutations emerging on darunavir therapy in PI-naive and -experienced patients in the UK

(2016) Kate El Bouzidi et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

HIV Drug Resistance Mutations (DRMs) Detected by Deep Sequencing in Virologic Failure Subjects on Therapy from Hunan Province, China

(2016) Xi Chen et al.   PLoS One

Diversity of HIV-1 reservoirs in CD4+ T-cell subpopulations

(2016) Guinevere Q. Lee et al.   Current Opinion in HIV and AIDS

Persistent HIV-1 replication during antiretroviral therapy

(2016) Javier Martinez-Picado et al.   Current Opinion in HIV and AIDS

Imperfect drug penetration leads to spatial monotherapy and rapid evolution of multidrug resistance

(2015) Stefany Moreno-Gamez et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

HIV Drug Resistance Mutations in Proviral DNA from a Community Treatment Program

(2015) Anne Derache et al.   PLoS One

Understanding HIV Compartments and Reservoirs

(2014) Valentina Svicher et al.   Current HIV/AIDS Reports

Next-Generation Sequencing to Help Monitor Patients Infected with HIV: Ready for Clinical Use?

(2014) Richard M. Gibson et al.   Current Infectious Disease Reports

MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0

(2013) Koichiro Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

HIV reservoirs

(2012) Tae-Wook Chun et al.   AIDS

Comparison of resistance mutation patterns in historical plasma HIV RNA genotypes with those in current proviral HIV DNA genotypes among extensively treated patients with suppressed replication

(2012) C Delaugerre et al.   HIV MEDICINE

Comparison of Next-Generation Sequencing Systems

(2012) Lin Liu et al.   JOURNAL OF BIOMEDICINE AND BIOTECHNOLOGY

Automating HIV Drug Resistance Genotyping with RECall, a Freely Accessible Sequence Analysis Tool

(2012) Conan K. Woods et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Deep Sequencing Reveals Minor Protease Resistance Mutations in Patients Failing a Protease Inhibitor Regimen

(2012) R. Fisher et al.   JOURNAL OF VIROLOGY

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

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

Ultra-Deep Sequencing of HIV-1 Reverse Transcriptase Before Start of an NNRTI-based Regimen in Treatment-naive Patients

(2012) Peter Messiaen et al.   VIROLOGY

FLASH: fast length adjustment of short reads to improve genome assemblies

(2011) T. Magoc et al.   BIOINFORMATICS

Genotypic and Phenotypic Characterization of HIV-1 Isolates Obtained From Patients on Rilpivirine Therapy Experiencing Virologic Failure in the Phase 3 ECHO and THRIVE Studies

(2011) Laurence Rimsky et al.   JAIDS-JOURNAL OF ACQUIRED IMMUNE DEFICIENCY SYNDROMES

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

Intercompartmental Recombination of HIV-1 Contributes to env Intrahost Diversity and Modulates Viral Tropism and Sensitivity to Entry Inhibitors

(2011) R. J. P. Brown et al.   JOURNAL OF VIROLOGY

Differences in Reversion of Resistance Mutations to Wild-Type under Structured Treatment Interruption and Related Increase in Replication Capacity

(2011) Agnes C. Paquet et al.   PLoS One

Analysis of Low-Frequency Mutations Associated with Drug Resistance to Raltegravir before Antiretroviral Treatment

(2010) Jia Liu et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Resistant viral variants in cellular reservoirs of human immunodeficiency virus infection

(2010) O. Turriziani et al.   CLINICAL MICROBIOLOGY AND INFECTION

Genetic characterization of HIV-1 from semen and blood from clade C-infected subjects from India and effect of therapy in these body compartments

(2010) Chengli Shen et al.   VIROLOGY

HIV-1 V3 envelope deep sequencing for clinical plasma specimens failing in phenotypic tropism assays

(2010) Ina Vandenbroucke et al.   AIDS Research and Therapy

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

HIV-1 Can Persist in Aged Memory CD4+ T Lymphocytes With Minimal Signs of Evolution After 8.3 Years of Effective Highly Active Antiretroviral Therapy

(2009) Hans S L M Nottet et al.   JAIDS-JOURNAL OF ACQUIRED IMMUNE DEFICIENCY SYNDROMES

Analysis of Human Immunodeficiency Virus Type 1 Viremia and Provirus in Resting CD4+ T Cells Reveals a Novel Source of Residual Viremia in Patients on Antiretroviral Therapy

(2009) T. P. Brennan et al.   JOURNAL OF VIROLOGY

HIV reservoir size and persistence are driven by T cell survival and homeostatic proliferation

(2009) Nicolas Chomont et al.   NATURE MEDICINE

Genotypic antiretroviral drug resistance testing at low viral loads in the UK

(2008) PA Cane et al.   HIV MEDICINE