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B cell immunodominance in primary hepatitis C virus infection.

Brasher NA, Eltahla AA, Underwood A, Boo I, Rizzetto S, Walker M, Rodrigo C, Luciani F, Maher L, Drummer HE, Tedla N, Lloyd AR, Bull RA.

J Hepatol. 2019 Nov 27. pii: S0168-8278(19)30698-1. doi: 10.1016/j.jhep.2019.11.011. [Epub ahead of print]


Clearance of hepatitis C virus is associated with early and potent but narrowly-directed, Envelope-specific antibodies.

Walker MR, Leung P, Eltahla AA, Underwood A, Abayasingam A, Brasher NA, Li H, Wu BR, Maher L, Luciani F, Lloyd AR, Bull RA.

Sci Rep. 2019 Sep 16;9(1):13300. doi: 10.1038/s41598-019-49454-w.


A method for detecting hepatitis C envelope specific memory B cells from multiple genotypes using cocktail E2 tetramers.

Wu BR, Eltahla AA, Keoshkerian E, Walker MR, Underwood A, Brasher NA, Agapiou D, Lloyd AR, Bull RA.

J Immunol Methods. 2019 Sep;472:65-74. doi: 10.1016/j.jim.2019.06.016. Epub 2019 Jun 19.


Broadly neutralizing antibodies from an individual that naturally cleared multiple hepatitis C virus infections uncover molecular determinants for E2 targeting and vaccine design.

Keck ZY, Pierce BG, Lau P, Lu J, Wang Y, Underwood A, Bull RA, Prentoe J, Velázquez-Moctezuma R, Walker MR, Luciani F, Guest JD, Fauvelle C, Baumert TF, Bukh J, Lloyd AR, Foung SKH.

PLoS Pathog. 2019 May 17;15(5):e1007772. doi: 10.1371/journal.ppat.1007772. eCollection 2019 May.


Toward DNA-Based T-Cell Mediated Vaccines to Target HIV-1 and Hepatitis C Virus: Approaches to Elicit Localized Immunity for Protection.

Mekonnen ZA, Grubor-Bauk B, Masavuli MG, Shrestha AC, Ranasinghe C, Bull RA, Lloyd AR, Gowans EJ, Wijesundara DK.

Front Cell Infect Microbiol. 2019 Apr 3;9:91. doi: 10.3389/fcimb.2019.00091. eCollection 2019. Review.


Genomic characterization of hepatitis C virus transmitted founder variants with deep sequencing.

Abayasingam A, Leung P, Eltahla A, Bull RA, Luciani F, Grebely J, Dore GJ, Applegate T, Page K, Bruneau J, Cox AL, Kim AY, Schinkel J, Shoukry NH, Lauer GM, Maher L, Hellard M, Prins M, Lloyd A, Rodrigo C; InC3 Study Group.

Infect Genet Evol. 2019 Jul;71:36-41. doi: 10.1016/j.meegid.2019.02.032. Epub 2019 Mar 8.


Higher abundance of enterovirus A species in the gut of children with islet autoimmunity.

Kim KW, Horton JL, Pang CNI, Jain K, Leung P, Isaacs SR, Bull RA, Luciani F, Wilkins MR, Catteau J, Lipkin WI, Rawlinson WD, Briese T, Craig ME.

Sci Rep. 2019 Feb 11;9(1):1749. doi: 10.1038/s41598-018-38368-8.


Genomic variability of within-host hepatitis C variants in acute infection.

Rodrigo C, Leung P, Lloyd AR, Bull RA, Luciani F, Grebely J, Dore GJ, Applegate T, Page K, Bruneau J, Cox AL, Osburn W, Kim AY, Shoukry NH, Lauer GM, Maher L, Schinkel J, Prins M, Hellard M, Eltahla AA; InC3 Collaborative.

J Viral Hepat. 2019 Apr;26(4):476-484. doi: 10.1111/jvh.13051. Epub 2019 Jan 22.


Chemokine-Regulated Recruitment of Antigen-Specific T-Cell Subpopulations to the Liver in Acute and Chronic Hepatitis C Infection.

Pirozyan MR, Nguyen N, Cameron B, Luciani F, Bull RA, Zekry A, Lloyd AR.

J Infect Dis. 2019 Apr 16;219(9):1430-1438. doi: 10.1093/infdis/jiy679.


Understanding the Determinants of BnAb Induction in Acute HCV Infection.

Underwood AP, Walker MR, Brasher NA, Eltahla AA, Maher L, Luciani F, Lloyd AR, Bull RA.

Viruses. 2018 Nov 21;10(11). pii: E659. doi: 10.3390/v10110659.


Amplification and next generation sequencing of near full-length human enteroviruses for identification and characterisation from clinical samples.

Isaacs SR, Kim KW, Cheng JX, Bull RA, Stelzer-Braid S, Luciani F, Rawlinson WD, Craig ME.

Sci Rep. 2018 Aug 8;8(1):11889. doi: 10.1038/s41598-018-30322-y.


Clonally diverse CD38+HLA-DR+CD8+ T cells persist during fatal H7N9 disease.

Wang Z, Zhu L, Nguyen THO, Wan Y, Sant S, Quiñones-Parra SM, Crawford JC, Eltahla AA, Rizzetto S, Bull RA, Qiu C, Koutsakos M, Clemens EB, Loh L, Chen T, Liu L, Cao P, Ren Y, Kedzierski L, Kotsimbos T, McCaw JM, La Gruta NL, Turner SJ, Cheng AC, Luciani F, Zhang X, Doherty PC, Thomas PG, Xu J, Kedzierska K.

Nat Commun. 2018 Feb 26;9(1):824. doi: 10.1038/s41467-018-03243-7.


Sequencing of hepatitis C virus for detection of resistance to direct-acting antiviral therapy: A systematic review.

Bartlett SR, Grebely J, Eltahla AA, Reeves JD, Howe AYM, Miller V, Ceccherini-Silberstein F, Bull RA, Douglas MW, Dore GJ, Harrington P, Lloyd AR, Jacka B, Matthews GV, Wang GP, Pawlotsky JM, Feld JJ, Schinkel J, Garcia F, Lennerstrand J, Applegate TL.

Hepatol Commun. 2017 May 22;1(5):379-390. doi: 10.1002/hep4.1050. eCollection 2017 Jul. Review.


Genome-Wide Mutagenesis of Dengue Virus Reveals Plasticity of the NS1 Protein and Enables Generation of Infectious Tagged Reporter Viruses.

Eyre NS, Johnson SM, Eltahla AA, Aloi M, Aloia AL, McDevitt CA, Bull RA, Beard MR.

J Virol. 2017 Nov 14;91(23). pii: e01455-17. doi: 10.1128/JVI.01455-17. Print 2017 Dec 1.


Persistent infections in immunocompromised hosts are rarely sources of new pathogen variants.

Eden JS, Chisholm RH, Bull RA, White PA, Holmes EC, Tanaka MM.

Virus Evol. 2017 Jul 28;3(2):vex018. doi: 10.1093/ve/vex018. eCollection 2017 Jul.


Dynamic evolution of hepatitis C virus resistance-associated substitutions in the absence of antiviral treatment.

Eltahla AA, Leung P, Pirozyan MR, Rodrigo C, Grebely J, Applegate T, Maher L, Luciani F, Lloyd AR, Bull RA.

Sci Rep. 2017 Jan 31;7:41719. doi: 10.1038/srep41719.


Limited naturally occurring escape in broadly neutralizing antibody epitopes in hepatitis C glycoprotein E2 and constrained sequence usage in acute infection.

Rodrigo C, Walker MR, Leung P, Eltahla AA, Grebely J, Dore GJ, Applegate T, Page K, Dwivedi S, Bruneau J, Morris MD, Cox AL, Osburn W, Kim AY, Schinkel J, Shoukry NH, Lauer GM, Maher L, Hellard M, Prins M, Luciani F, Lloyd AR, Bull RA; InC(3) Study Group.

Infect Genet Evol. 2017 Apr;49:88-96. doi: 10.1016/j.meegid.2017.01.006. Epub 2017 Jan 5.


Understanding the complex evolution of rapidly mutating viruses with deep sequencing: Beyond the analysis of viral diversity.

Leung P, Eltahla AA, Lloyd AR, Bull RA, Luciani F.

Virus Res. 2017 Jul 15;239:43-54. doi: 10.1016/j.virusres.2016.10.014. Epub 2016 Nov 22. Review.


A molecular transmission network of recent hepatitis C infection in people with and without HIV: Implications for targeted treatment strategies.

Bartlett SR, Wertheim JO, Bull RA, Matthews GV, Lamoury FM, Scheffler K, Hellard M, Maher L, Dore GJ, Lloyd AR, Applegate TL, Grebely J.

J Viral Hepat. 2017 May;24(5):404-411. doi: 10.1111/jvh.12652. Epub 2016 Nov 24.


Phylogenetic analysis of full-length, early infection, hepatitis C virus genomes among people with intravenous drug use: the InC3 Study.

Rodrigo C, Eltahla AA, Bull RA, Luciani F, Grebely J, Dore GJ, Applegate T, Page K, Bruneau J, Morris MD, Cox AL, Osburn W, Kim AY, Shoukry NH, Lauer GM, Maher L, Schinkel J, Prins M, Hellard M, Lloyd AR; InC3 Collaborative.

J Viral Hepat. 2017 Jan;24(1):43-52. doi: 10.1111/jvh.12616. Epub 2016 Nov 3.


Analysis of resistance-associated substitutions in acute hepatitis C virus infection by deep sequencing across six genotypes and three continents.

Eltahla AA, Rodrigo C, Betz-Stablein B, Grebely J, Applegate T, Luciani F, Schinkel J, Dore GJ, Page K, Bruneau J, Morris MD, Cox AL, Kim AY, Shoukry NH, Lauer GM, Maher L, Hellard M, Prins M, Lloyd AR, Bull RA; InC3 Study Group.

J Viral Hepat. 2017 Jan;24(1):37-42. doi: 10.1111/jvh.12615. Epub 2016 Sep 25.


Historical Trends in the Hepatitis C Virus Epidemics in North America and Australia.

Rodrigo C, Eltahla AA, Bull RA, Grebely J, Dore GJ, Applegate T, Page K, Bruneau J, Morris MD, Cox AL, Osburn W, Kim AY, Schinkel J, Shoukry NH, Lauer GM, Maher L, Hellard M, Prins M, Estes C, Razavi H, Lloyd AR, Luciani F; International Collaborative of Incident HIV and Hepatitis C in Injecting Cohorts (InC3) Study Group.

J Infect Dis. 2016 Nov 1;214(9):1383-1389. Epub 2016 Aug 28.


Incident Hepatitis C Virus Genotype Distribution and Multiple Infection in Australian Prisons.

Walker MR, Li H, Teutsch S, Betz-Stablein B, Luciani F, Lloyd AR, Bull RA.

J Clin Microbiol. 2016 Jul;54(7):1855-1861. doi: 10.1128/JCM.00287-16. Epub 2016 May 11.


A method for near full-length amplification and sequencing for six hepatitis C virus genotypes.

Bull RA, Eltahla AA, Rodrigo C, Koekkoek SM, Walker M, Pirozyan MR, Betz-Stablein B, Toepfer A, Laird M, Oh S, Heiner C, Maher L, Schinkel J, Lloyd AR, Luciani F.

BMC Genomics. 2016 Mar 17;17:247. doi: 10.1186/s12864-016-2575-8.


Linking the T cell receptor to the single cell transcriptome in antigen-specific human T cells.

Eltahla AA, Rizzetto S, Pirozyan MR, Betz-Stablein BD, Venturi V, Kedzierska K, Lloyd AR, Bull RA, Luciani F.

Immunol Cell Biol. 2016 Jul;94(6):604-11. doi: 10.1038/icb.2016.16. Epub 2016 Feb 10.


HIV infection and hepatitis C virus genotype 1a are associated with phylogenetic clustering among people with recently acquired hepatitis C virus infection.

Bartlett SR, Jacka B, Bull RA, Luciani F, Matthews GV, Lamoury FM, Hellard ME, Hajarizadeh B, Teutsch S, White B, Maher L, Dore GJ, Lloyd AR, Grebely J, Applegate TL.

Infect Genet Evol. 2016 Jan;37:252-8. doi: 10.1016/j.meegid.2015.11.028. Epub 2015 Nov 26.


Inhibitors of the Hepatitis C Virus Polymerase; Mode of Action and Resistance.

Eltahla AA, Luciani F, White PA, Lloyd AR, Bull RA.

Viruses. 2015 Sep 29;7(10):5206-24. doi: 10.3390/v7102868. Review.


The Interferon-induced Transmembrane Proteins, IFITM1, IFITM2, and IFITM3 Inhibit Hepatitis C Virus Entry.

Narayana SK, Helbig KJ, McCartney EM, Eyre NS, Bull RA, Eltahla A, Lloyd AR, Beard MR.

J Biol Chem. 2015 Oct 23;290(43):25946-59. doi: 10.1074/jbc.M115.657346. Epub 2015 Sep 9.


The Influence of Hepatitis C Virus Genetic Region on Phylogenetic Clustering Analysis.

Lamoury FM, Jacka B, Bartlett S, Bull RA, Wong A, Amin J, Schinkel J, Poon AF, Matthews GV, Grebely J, Dore GJ, Applegate TL.

PLoS One. 2015 Jul 20;10(7):e0131437. doi: 10.1371/journal.pone.0131437. eCollection 2015.


Transmitted/Founder Viruses Rapidly Escape from CD8+ T Cell Responses in Acute Hepatitis C Virus Infection.

Bull RA, Leung P, Gaudieri S, Deshpande P, Cameron B, Walker M, Chopra A, Lloyd AR, Luciani F.

J Virol. 2015 May;89(10):5478-90. doi: 10.1128/JVI.03717-14. Epub 2015 Mar 4.


Resistance to hepatitis C virus: potential genetic and immunological determinants.

Mina MM, Luciani F, Cameron B, Bull RA, Beard MR, Booth D, Lloyd AR.

Lancet Infect Dis. 2015 Apr;15(4):451-60. doi: 10.1016/S1473-3099(14)70965-X. Epub 2015 Feb 19. Review.


Viral quasispecies assembly via maximal clique enumeration.

Töpfer A, Marschall T, Bull RA, Luciani F, Schönhuth A, Beerenwinkel N.

PLoS Comput Biol. 2014 Mar 27;10(3):e1003515. doi: 10.1371/journal.pcbi.1003515. eCollection 2014 Mar.


Next generation deep sequencing and vaccine design: today and tomorrow.

Luciani F, Bull RA, Lloyd AR.

Trends Biotechnol. 2012 Sep;30(9):443-52. doi: 10.1016/j.tibtech.2012.05.005. Epub 2012 Jun 20. Review.


Hepatitis C virus nonstructural protein 5B is involved in virus morphogenesis.

Gouklani H, Bull RA, Beyer C, Coulibaly F, Gowans EJ, Drummer HE, Netter HJ, White PA, Haqshenas G.

J Virol. 2012 May;86(9):5080-8. doi: 10.1128/JVI.07089-11. Epub 2012 Feb 15.


Contribution of intra- and interhost dynamics to norovirus evolution.

Bull RA, Eden JS, Luciani F, McElroy K, Rawlinson WD, White PA.

J Virol. 2012 Mar;86(6):3219-29. doi: 10.1128/JVI.06712-11. Epub 2011 Dec 28.


Hepatitis C virus reinfection and superinfection among treated and untreated participants with recent infection.

Grebely J, Pham ST, Matthews GV, Petoumenos K, Bull RA, Yeung B, Rawlinson W, Kaldor J, Lloyd A, Hellard M, Dore GJ, White PA; ATAHC Study Group.

Hepatology. 2012 Apr;55(4):1058-69. doi: 10.1002/hep.24754. Epub 2012 Feb 29.


Sequential bottlenecks drive viral evolution in early acute hepatitis C virus infection.

Bull RA, Luciani F, McElroy K, Gaudieri S, Pham ST, Chopra A, Cameron B, Maher L, Dore GJ, White PA, Lloyd AR.

PLoS Pathog. 2011 Sep;7(9):e1002243. doi: 10.1371/journal.ppat.1002243. Epub 2011 Sep 1.


Effect of reassortment on the nucleotide and amino acid changes of human A/H3N2 RNP subunits during 1998-2009.

Wong KK, Bull RA, Stelzer-Braid S, Fennell M, Rawlinson W.

J Clin Virol. 2011 Aug;51(4):270-5. doi: 10.1016/j.jcv.2011.05.013. Epub 2011 Jun 14.


Mechanisms of GII.4 norovirus evolution.

Bull RA, White PA.

Trends Microbiol. 2011 May;19(5):233-40. doi: 10.1016/j.tim.2011.01.002. Epub 2011 Feb 9. Review.


Correlation of polymerase replication fidelity with genetic evolution of influenza A/Fujian/411/02(H3N2) viruses.

Wong KK, Bull RA, Rockman S, Scott G, Stelzer-Braid S, Rawlinson W.

J Med Virol. 2011 Mar;83(3):510-6. doi: 10.1002/jmv.21991.


Why replication is important in landscape genetics: American black bear in the Rocky Mountains.

Bull RA, Cushman SA, Mace R, Chilton T, Kendall KC, Landguth EL, Schwartz MK, McKelvey K, Allendorf FW, Luikart G.

Mol Ecol. 2011 Mar;20(6):1092-107. doi: 10.1111/j.1365-294X.2010.04944.x. Epub 2011 Jan 25.


Frequent multiple hepatitis C virus infections among injection drug users in a prison setting.

Pham ST, Bull RA, Bennett JM, Rawlinson WD, Dore GJ, Lloyd AR, White PA.

Hepatology. 2010 Nov;52(5):1564-72. doi: 10.1002/hep.23885.


Comparison of the replication properties of murine and human calicivirus RNA-dependent RNA polymerases.

Bull RA, Hyde J, Mackenzie JM, Hansman GS, Oka T, Takeda N, White PA.

Virus Genes. 2011 Feb;42(1):16-27. doi: 10.1007/s11262-010-0535-y. Epub 2010 Oct 20.


Norovirus GII.4 variant 2006b caused epidemics of acute gastroenteritis in Australia during 2007 and 2008.

Eden JS, Bull RA, Tu E, McIver CJ, Lyon MJ, Marshall JA, Smith DW, Musto J, Rawlinson WD, White PA.

J Clin Virol. 2010 Dec;49(4):265-71. doi: 10.1016/j.jcv.2010.09.001.


Rapid evolution of pandemic noroviruses of the GII.4 lineage.

Bull RA, Eden JS, Rawlinson WD, White PA.

PLoS Pathog. 2010 Mar 26;6(3):e1000831. doi: 10.1371/journal.ppat.1000831. Erratum in: PLoS Pathog. 2010;6(4) White, Peter A [added].


Norovirus excretion in an aged-care setting.

Tu ET, Bull RA, Kim MJ, McIver CJ, Heron L, Rawlinson WD, White PA.

J Clin Microbiol. 2008 Jun;46(6):2119-21. doi: 10.1128/JCM.02198-07. Epub 2008 Apr 16.


Norovirus GII.4 strains and outbreaks, Australia.

Tu ET, Nguyen T, Lee P, Bull RA, Musto J, Hansman G, White PA, Rawlinson WD, McIver CJ.

Emerg Infect Dis. 2007 Jul;13(7):1128-30. No abstract available.


Epidemics of gastroenteritis during 2006 were associated with the spread of norovirus GII.4 variants 2006a and 2006b.

Tu ET, Bull RA, Greening GE, Hewitt J, Lyon MJ, Marshall JA, McIver CJ, Rawlinson WD, White PA.

Clin Infect Dis. 2008 Feb 1;46(3):413-20. doi: 10.1086/525259.


Norovirus recombination.

Bull RA, Tanaka MM, White PA.

J Gen Virol. 2007 Dec;88(Pt 12):3347-59.


Emergence of a new norovirus genotype II.4 variant associated with global outbreaks of gastroenteritis.

Bull RA, Tu ET, McIver CJ, Rawlinson WD, White PA.

J Clin Microbiol. 2006 Feb;44(2):327-33.

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