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A
Leigh Brown A, Lycett S, Weinert L, Hughes GJ, Fearnhill E, Dunn DT, UK HIV Drug Resistance Database.  2010.  Analysis of the Degree Distribution of HIV Transmission Networks Inferred from Viral Sequence Data. 17th Conference on Retroviruses and Opportunistic Infections, February 2010.
Hodcroft E, Ragonnet-Cronin M, Wertheim JO, Lycett S, Kosakovsky Pond SL, Leigh Brown A.  2017.  Analyzing "missing men" in the UK Heterosexual HIV epidemic by DSPS-HIV simulations. CROI.
Mackie N, Phillips AN, Kaye S, Booth C, Geretti AM.  2010.  Antiretroviral drug resistance in HIV-1-infected patients with low-level viremia. J Infect Dis. 201:1303-7.
Byrne L, Thorne C, Tookey P, Tostevin A, Dunn DT, Chau C, Delpech V.  2015.  Antiretroviral drug resistance in pregnant women living with HIV in England and Wales: Preliminary results from the matching of three national HIV surveillance databases. British HIV Association Conference (BHIVA) 2015.
Gifford RJM, de Oliveira T, Rambaut A, Myers R.E, Gale C.V, Dunn DT, Shafer R., Vandamme A.M, Kellam P, Pillay D.  2006.  Assessment of automated genotyping protocols as tools for surveillance of HIV-1 genetic diversity. AIDS. 20:1521-9.
Schultze A, Paredes R, Sabin CA, Phillips AN, Pillay D, Mackie N, Castagna A, Chadwick D, Falconer K, Geretti AM et al..  2017.  The association between detected drug resistance mutations and CD4+ T-cell decline in HIV-positive individuals maintained on a failing treatment regimen.. Antivir Ther.
Smit E, White E, Clark D, Churchill D, Zhang H, Collins S, Pillay D, Sabin CA, Nelson M, Winston A et al..  2017.  An association between K65R and HIV-1 subtype C viruses in patients treated with multiple NRTIs. J Antimicrob Chemother.
Stirrup OT, Sabin CA, Phillips AN, Williams I, Churchill D, Tostevin A, Hill T, Dunn DT, UK Collaborative Group on HIV Drug Resistance and the UK Collaborative HIV Cohort Study.  2019.  Associations between baseline characteristics, CD4 cell count response and virological failure on first-line efavirenz + tenofovir + emtricitabine for HIV.. J Virus Erad. 5(4):204-211.
Ragonnet-Cronin M, Lycett S, Hodcroft E, Hue S, Fearnhill E, Dunn DT, Delpech V, Leigh Brown A.  2012.  Automated Analysis of A1 cluster dynamics in the UK 2007-2010. 19th International HIV Dynamics & Evolution Conference, 25-28 April 2012.
Ragonnet-Cronin M, Hodcroft E, Hue S, Fearnhill E, Delpech V, Leigh Brown A, Lycett S.  2013.  Automated analysis of phylogenetic clusters. BMC Bioinformatics. 14:317.
B
Lewis F, Fearnhill E, Murray R, Pillay D, Dunn DT, Leigh Brown A, UK Collaborative Group on HIV Drug Resistance.  2006.  Bayesian models in the analysis of HIV drug resistance data from the UK HIV Drug Resistance Database. 15th International HIV Drug Resistance Workshop, 13-17 June 2006.
Weinert L, Hughes GJ, Fearnhill E, Dunn DT, Rambaut A, Leigh Brown A, UK HIV Drug Resistance Database.  2010.  Bayesian Phylogeography of HIV among MSM in the UK Indicates a Few Source Areas of Widespread Infection. 17th Conference on Retroviruses and Opportunistic Infections, February 2010.
Pillay D, Dunn DT.  2009.  The biology, epidemiology and clinical implications of transmitted HIV drug resistant viruses. 16th Conference on Retroviruses and Opportunistic Infections, February 2009.
C
Cozzi-Lepri A, Prosperi M.C, Kjaer J., Dunn DT, Paredes R, Sabin CA, Lundgren J, Phillips AN, Pillay D.  2011.  Can linear regression modeling help clinicians in the interpretation of genotypic resistance data? An application to derive a lopinavir-score PLoS One. 6:e25665.
Le Vu S, Ratmann O, Delpech V, Brown A, Gill NO, Tostevin A, Fraser C, Volz E.  2016.  Characterising HIV transmission risk factors using genetic source attribution and phylogenetic clustering. HIV Dynamics and Evolution Meeting 2016.
Collins IJ, Foster C, Tostevin A, Tookey P, Riordan A., Dunn DT, Gibb DM, Judd A.  2017.  Clinical Status of Adolescents with Perinatal HIV at Transfer to Adult Care in the UK/Ireland. Clin Infect Dis. Epub ahead of print
Weiner L, Hughes GJ, Fearnhill E, Dunn DT, Rambaut A, Leigh Brown A, UK HIV Drug Resistance Database.  2009.  Clustering and Geography: analysis of HIV transmission among UK MSM. 16th International HIV Dynamics & Evolution Meeting, April 2009.
Stirrup O, Dunn D.  2017.  Combining ambiguous nucleotide calls with longitudinal CD4 counts and viral load measurements to derive patient-specific distributions for date of HIV seroconversion. 21st International Workshop on HIV and Hepatitis Observational Databases.
Le Vu S, Ratmann O, Delpech V, Brown A, Gill NO, Tostevin A, Fraser C, Volz E.  2017.  Comparison of cluster-based and source-attribution methods for estimating transmission risk using large HIV sequence databases.. Epidemics.
Ambrose JC, Foster GM, Fearnhill E, Leigh Brown A, Porter K, Mackie N, Fidler S, Geretti AM, On behalf of the UK Register of HIV Seroconverters and the UK HIV Drug Resistance Database.  2011.  The contribution of recent infections to HIV-1 transmission clusters in the UK. 18th International HIV Dynamics and Evolution Conference, 1-4 May 2011.