Publications by authors named "Daniela Bezemer"

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The genetic architecture of HIV-1 virulence.
François Blanquart, Chris Wymant, Matthew Hall, Robert Power, Tanya Golubchik, Daniela Bezemer

Virus Evol· December 2025

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HIV-phyloTSI: subtype-independent estimation of time since HIV-1 infection for cross-sectional measures of population incidence using deep sequence data.
Tanya Golubchik, Lucie Abeler-Dörner, Matthew Hall, Chris Wymant, David Bonsall, Daniela Bezemer

BMC Bioinformatics· August 2025

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Bayesian mixture models for phylogenetic source attribution from consensus sequences and time since infection estimates.
Alexandra Blenkinsop, Lysandros Sofocleous, Francesco Di Lauro, Evangelia Georgia Kostaki, Ard van Sighem, Daniela Bezemer

Stat Methods Med Res· March 2025

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Impact of Varying Pre-exposure Prophylaxis Programs on HIV and Neisseria gonorrhoeae Transmission Among MSM in the Netherlands: A Modeling Study.
Maarten Reitsema, Jacco Wallinga, Ard I van Sighem, Daniela Bezemer, Marc van der Valk

J Acquir Immune Defic Syndr· December 2024

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Sources of Human Immunodeficiency Virus Infections Among Men Who Have Sex With Men With a Migration Background: A Viral Phylogenetic Case Study in Amsterdam, The Netherlands.
Alexandra Blenkinsop, Nikos Pantazis, Evangelia Georgia Kostaki, Lysandros Sofocleous, Ard van Sighem, Daniela Bezemer

J Infect Dis· October 2024

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Oral HIV pre-exposure prophylaxis use and resistance-associated mutations among men who have sex with men and transgender persons newly diagnosed with HIV in the Netherlands: results from the ATHENA cohort, 2018 to 2022.
Vita W Jongen, Daniela Bezemer, Ard van Sighem, Anders Boyd, Casper Rokx

Euro Surveill· September 2024

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Estimating the potential to prevent locally acquired HIV infections in a UNAIDS Fast-Track City, Amsterdam.
Alexandra Blenkinsop, Mélodie Monod, Ard van Sighem, Nikos Pantazis, Daniela Bezemer

Elife· August 2022

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Phylogenetic estimation of the viral fitness landscape of HIV-1 set-point viral load.
Lele Zhao, Chris Wymant, François Blanquart, Tanya Golubchik, Astrid Gall, Daniela Bezemer

Virus Evol· March 2022

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A highly virulent variant of HIV-1 circulating in the Netherlands.
Chris Wymant, Daniela Bezemer, François Blanquart, Luca Ferretti, Astrid Gall

Science· February 2022

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Many but small HIV-1 non-B transmission chains in the Netherlands.
Daniela Bezemer, Alexandra Blenkinsop, Matthew Hall, Ard van Sighem, Marion Cornelissen

AIDS· January 2022

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Phylogenies from dynamic networks.
Cornelia Metzig, Oliver Ratmann, Daniela Bezemer, Caroline Colijn

PLoS Comput Biol· February 2019

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Elimination prospects of the Dutch HIV epidemic among men who have sex with men in the era of preexposure prophylaxis.
Ganna Rozhnova, Janneke Heijne, Daniela Bezemer, Ard van Sighem, Anne Presanis

AIDS· November 2018

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AIDS Therapy Evaluation in the Netherlands (ATHENA) national observational HIV cohort: cohort profile.
Tamara Sonia Boender, Colette Smit, Ard van Sighem, Daniela Bezemer, Catriona J Ester

BMJ Open· September 2018

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Easy and accurate reconstruction of whole HIV genomes from short-read sequence data with shiver.
Chris Wymant, François Blanquart, Tanya Golubchik, Astrid Gall, Margreet Bakker, Daniela Bezemer

Virus Evol· January 2018

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Limited overlap between phylogenetic HIV and hepatitis C virus clusters illustrates the dynamic sexual network structure of Dutch HIV-infected MSM.
Joost W Vanhommerig, Daniela Bezemer, Richard Molenkamp, Ard I Van Sighem, Colette Smit

AIDS· September 2017

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From clinical sample to complete genome: Comparing methods for the extraction of HIV-1 RNA for high-throughput deep sequencing.
Marion Cornelissen, Astrid Gall, Monique Vink, Fokla Zorgdrager, Špela Binter, Daniela Bezemer

Virus Res· July 2017

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Correction: Viral genetic variation accounts for a third of variability in HIV-1 set-point viral load in Europe.
François Blanquart, Chris Wymant, Marion Cornelissen, Astrid Gall, Margreet Bakker, Daniela Bezemer

PLoS Biol· July 2017

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Viral genetic variation accounts for a third of variability in HIV-1 set-point viral load in Europe.
François Blanquart, Chris Wymant, Marion Cornelissen, Astrid Gall, Margreet Bakker, Daniela Bezemer

PLoS Biol· June 2017

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Phylogenetic evidence for underreporting of male-to-male sex among human immunodeficiency virus-infected donors in the Netherlands and Flanders.
Thijs J van de Laar, Daniela Bezemer, Kristel van Laethem, Giovani Vandewalle, Annie de Smet

Transfusion· May 2017

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A Method to Estimate the Size and Characteristics of HIV-positive Populations Using an Individual-based Stochastic Simulation Model.
Fumiyo Nakagawa, Ard van Sighem, Rodolphe Thiebaut, Colette Smith, Oliver Ratmann, Daniela Bezemer

Epidemiology· March 2016

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Sources of HIV infection among men having sex with men and implications for prevention.
Oliver Ratmann, Ard van Sighem, Daniela Bezemer, Alexandra Gavryushkina, Suzanne Jurriaans

Sci Transl Med· January 2016

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Dispersion of the HIV-1 Epidemic in Men Who Have Sex with Men in the Netherlands: A Combined Mathematical Model and Phylogenetic Analysis.
Daniela Bezemer, Anne Cori, Oliver Ratmann, Ard van Sighem, Hillegonda S Hermanides

PLoS Med· November 2015

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CD4+ cell dynamics in untreated HIV-1 infection: overall rates, and effects of age, viral load, sex and calendar time.
Anne Cori, Michael Pickles, Ard van Sighem, Luuk Gras, Daniela Bezemer

AIDS· November 2015

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Estimating HIV Incidence, Time to Diagnosis, and the Undiagnosed HIV Epidemic Using Routine Surveillance Data.
Ard van Sighem, Fumiyo Nakagawa, Daniela De Angelis, Chantal Quinten, Daniela Bezemer

Epidemiology· September 2015

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