Increasing proportions of HIV-1 non-B subtypes and of NNRTI resistance between 2013 and 2016 in Germany: Results from the national molecular surveillance of new HIV-diagnoses

Robust and sensitive subtype-generic HIV-1 pol genotyping for use with dried serum spots in epidemiological studies

(2018) Andrea Hauser et al.   JOURNAL OF VIROLOGICAL METHODS

Assessment of HIV molecular surveillance capacity in the European Union, 2016

(2017) Patrick Keating et al.   Eurosurveillance

National molecular surveillance of recently acquired HIV infections in Germany, 2013 to 2014

(2017) Andrea Hauser et al.   Eurosurveillance

Prevalence of drug resistance among HIV-1 treatment-naive patients in Greece during 2003–2015: Transmitted drug resistance is due to onward transmissions

(2017) D. Paraskevis et al.   INFECTION GENETICS AND EVOLUTION

Dynamics and phylogenetic relationships of HIV-1 transmitted drug resistance according to subtype in Italy over the years 2000–14

(2017) L Fabeni et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Decreased emergence of HIV-1 drug resistance mutations in a cohort of Ugandan women initiating option B+ for PMTCT

(2017) Patrycja Machnowska et al.   PLoS One

Molecular evolution of HIV-1 integrase during the 20 years prior to the first approval of integrase inhibitors

(2017) Karolin Meixenberger et al.   Virology Journal

Transmission Dynamics of HIV-1 Drug Resistance among Treatment-Naïve Individuals in Greece: The Added Value of Molecular Epidemiology to Public Health

(2017) Dimitrios Paraskevis et al.   Genes

Expanding HIV-1 subtype B transmission networks among men who have sex with men in Poland

(2017) Miłosz Parczewski et al.   PLoS One

Integrase Strand Transfer Inhibitors (INSTIs) Resistance Mutations in HIV-1 Infected Turkish Patients

(2016) M. Sayan et al.   HIV CLINICAL TRIALS

Recent trends and patterns in HIV-1 transmitted drug resistance in the United Kingdom

(2016) A Tostevin et al.   HIV MEDICINE

Molecular epidemiology of HIV-1 infection in Europe: An overview

(2016) Apostolos Beloukas et al.   INFECTION GENETICS AND EVOLUTION

Prevalence of Transmitted HIV Drug Resistance Among Recently Infected Persons in San Diego, CA 1996–2013

(2016) Theppharit Panichsillapakit et al.   JAIDS-JOURNAL OF ACQUIRED IMMUNE DEFICIENCY SYNDROMES

Inferring HIV-1 Transmission Dynamics in Germany From Recently Transmitted Viruses

(2016) Kaveh Pouran Yousef et al.   JAIDS-JOURNAL OF ACQUIRED IMMUNE DEFICIENCY SYNDROMES

Development of a G118R mutation in HIV-1 integrase following a switch to dolutegravir monotherapy leading to cross-resistance to integrase inhibitors

(2016) Bluma G. Brenner et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

HIV treatment cascades

(2015) Andrew Hill et al.   AIDS

Evidence of Self-Sustaining Drug Resistant HIV-1 Lineages Among Untreated Patients in the United Kingdom

(2015) Jean L. Mbisa et al.   CLINICAL INFECTIOUS DISEASES

HIV-1 subtype B-infected MSM may have driven the spread of transmitted resistant strains in France in 2007–12: impact on susceptibility to first-line strategies

(2015) Pierre Frange et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Transmission of Non-B HIV Subtypes in the United Kingdom Is Increasingly Driven by Large Non-Heterosexual Transmission Clusters

(2015) Manon Ragonnet-Cronin et al.   JOURNAL OF INFECTIOUS DISEASES

Geographic and Temporal Trends in the Molecular Epidemiology and Genetic Mechanisms of Transmitted HIV-1 Drug Resistance: An Individual-Patient- and Sequence-Level Meta-Analysis

(2015) Soo-Yon Rhee et al.   PLOS MEDICINE

Persistence of Transmitted HIV-1 Drug Resistance Mutations Associated with Fitness Costs and Viral Genetic Backgrounds

(2015) Wan-Lin Yang et al.   PLoS Pathogens

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

COMET: adaptive context-based modeling for ultrafast HIV-1 subtype identification

(2014) Daniel Struck et al.   NUCLEIC ACIDS RESEARCH

Temporal Trends in the Swedish HIV-1 Epidemic: Increase in Non-B Subtypes and Recombinant Forms over Three Decades

(2014) Ujjwal Neogi et al.   PLoS One

First Line Treatment Response in Patients with Transmitted HIV Drug Resistance and Well Defined Time Point of HIV Infection: Updated Results from the German HIV-1 Seroconverter Study

(2014) Fabia zu Knyphausen et al.   PLoS One

Automated analysis of phylogenetic clusters

(2013) Manon Ragonnet-Cronin et al.   BMC BIOINFORMATICS

Treatment-Naive Individuals Are the Major Source of Transmitted HIV-1 Drug Resistance in Men Who Have Sex With Men in the Swiss HIV Cohort Study

(2013) Sara M. Drescher et al.   CLINICAL INFECTIOUS DISEASES

Automated subtyping of HIV-1 genetic sequences for clinical and surveillance purposes: Performance evaluation of the new REGA version 3 and seven other tools

(2013) Andrea-Clemencia Pineda-Peña et al.   INFECTION GENETICS AND EVOLUTION

Ultrafast Approximation for Phylogenetic Bootstrap

(2013) B. Q. Minh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Effect of transmitted drug resistance on virological and immunological response to initial combination antiretroviral therapy for HIV (EuroCoord-CHAIN joint project): a European multicohort study

(2011) Linda Wittkop et al.   LANCET INFECTIOUS DISEASES

Trends in virological and clinical outcomes in individuals with HIV-1 infection and virological failure of drugs from three antiretroviral drug classes: a cohort study

(2011)   LANCET INFECTIOUS DISEASES

Drug Resistance Mutations for Surveillance of Transmitted HIV-1 Drug-Resistance: 2009 Update

(2009) Diane E. Bennett et al.   PLoS One

Persistence of Transmitted Drug Resistance among Subjects with Primary Human Immunodeficiency Virus Infection

(2008) S. J. Little et al.   JOURNAL OF VIROLOGY