Bull RA; Luciani F, 2016, 'Next-Generation Sequencing, What Has It Told Us So Far?', in Foodborne Viral Pathogens, CRC Press
Bull R; White PA, 2010, 'Genome Organization and Recombination', in Hansman GS; Jiang XJ; Green KY (ed.), CALICIVIRUSES: MOLECULAR AND CELLULAR VIROLOGY, CAISTER ACADEMIC PRESS, pp. 45 - 63, http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000279759600003&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a
Mciver CJ; Bull RA; Tu ET; Rawlinson WD; White PA, 2005, 'Norovirus and Sapovirus', in McIver CJ (ed.), A Compendium of Laboratory Diagnostic Methods for Common and Unusual Enteric Pathogens - an Australian Perspective, edn. 1, Australian Society of Microbiology, Australia, pp. 191 - 198
Keck Z-Y; Pierce BG; Lau P; Lu J; Wang Y; Underwood A; Bull RA; Prentoe J; Velázquez-Moctezuma R; Walker MR, 2019, 'Broadly neutralizing antibodies from an individual that naturally cleared multiple hepatitis C virus infections uncover molecular determinants for E2 targeting and vaccine design.', PLoS Pathog, vol. 15, pp. e1007772, http://dx.doi.org/10.1371/journal.ppat.1007772
Pirozyan MR; Nguyen N; Cameron B; Luciani F; Bull RA; Zekry A; Lloyd AR, 2019, 'Chemokine-Regulated Recruitment of Antigen-Specific T-Cell Subpopulations to the Liver in Acute and Chronic Hepatitis C Infection', The Journal of infectious diseases, vol. 219, pp. 1430 - 1438, http://dx.doi.org/10.1093/infdis/jiy679
Rodrigo C; Leung P; Lloyd AR; Bull RA; Luciani F; Grebely J; Dore GJ; Applegate T; Page K; Bruneau J, 2019, 'Genomic variability of within-host hepatitis C variants in acute infection', Journal of Viral Hepatitis, vol. 26, pp. 476 - 484, http://dx.doi.org/10.1111/jvh.13051
Underwood AP; Walker MR; Brasher NA; Eltahla AA; Maher L; Luciani F; Lloyd AR; Bull RA, 2018, 'Understanding the determinants of BnAb induction in acute HCV infection', Viruses, vol. 10, http://dx.doi.org/10.3390/v10110659
Isaacs SR; Kim KW; Cheng JX; Bull RA; Stelzer-Braid S; Luciani F; Rawlinson WD; Craig ME, 2018, 'Amplification and next generation sequencing of near full-length human enteroviruses for identification and characterisation from clinical samples', Scientific Reports, vol. 8, http://dx.doi.org/10.1038/s41598-018-30322-y
Wang Z; Zhu L; Nguyen THO; Wan Y; Sant S; Quiñones-Parra SM; Crawford JC; Eltahla AA; Rizzetto S; Bull RA, 2018, 'Clonally diverse CD38+HLA-DR+CD8+ T cells persist during fatal H7N9 disease', Nature Communications, vol. 9, http://dx.doi.org/10.1038/s41467-018-03243-7
Rizzetto S; Eltahla A; Lin P; Bull R; Lloyd A; Ho J; Venturi V; Luciani F, 2017, 'Impact Of Sequencing Depth And Read Length On Single Cell RNA Sequencing Data: Lessons From T Cells', , http://dx.doi.org/10.1101/134130
Bartlett SR; Grebely J; Eltahla AA; Reeves JD; Howe AYM; Miller V; Ceccherini-Silberstein F; Bull RA; Douglas MW; Dore GJ, 2017, 'Sequencing of hepatitis C virus for detection of resistance to direct-acting antiviral therapy: A systematic review.', Hepatol Commun, vol. 1, pp. 379 - 390, http://dx.doi.org/10.1002/hep4.1050
Eyre NS; Johnson SM; Eltahla AA; Aloi M; Aloia AL; McDevitt CA; Bull RA; Beard MR, 2017, 'Genome-wide mutagenesis of dengue virus reveals plasticity of the NS1 protein and enables generation of infectious tagged reporter viruses', Journal of Virology, vol. 91, http://dx.doi.org/10.1128/JVI.01455-17
Rizzetto S; Eltahla AA; Lin P; Bull R; Lloyd AR; Ho JWK; Venturi V; Luciani F, 2017, 'Impact of sequencing depth and read length on single cell RNA sequencing data of T cells', Scientific Reports, vol. 7, http://dx.doi.org/10.1038/s41598-017-12989-x
Eden J-S; Chisholm RH; Bull RA; White PA; Holmes EC; Tanaka MM, 2017, 'Persistent infections in immunocompromised hosts are rarely sources of new pathogen variants.', Virus Evol, vol. 3, pp. vex018, http://dx.doi.org/10.1093/ve/vex018
Bartlett SR; Wertheim JO; Bull RA; Matthews GV; Lamoury FMJ; Scheffler K; Hellard M; Maher L; Dore GJ; Lloyd AR, 2017, 'A molecular transmission network of recent hepatitis C infection in people with and without HIV: Implications for targeted treatment strategies', Journal of Viral Hepatitis, vol. 24, pp. 404 - 411, http://dx.doi.org/10.1111/jvh.12652
Eltahla AA; Leung P; Pirozyan MR; Rodrigo C; Grebely J; Applegate T; Maher L; Luciani F; Lloyd AR; Bull RA, 2017, 'Dynamic evolution of hepatitis C virus resistance-associated substitutions in the absence of antiviral treatment', Scientific Reports, vol. 7, http://dx.doi.org/10.1038/srep41719
Rodrigo C; Walker MR; Leung P; Eltahla AA; Grebely J; Dore GJ; Applegate T; Page K; Dwivedi S; Bruneau J, 2017, 'Limited naturally occurring escape in broadly neutralizing antibody epitopes in hepatitis C glycoprotein E2 and constrained sequence usage in acute infection', Infection, Genetics and Evolution, vol. 49, pp. 88 - 96, http://dx.doi.org/10.1016/j.meegid.2017.01.006
Leung P; Eltahla AA; Lloyd AR; Bull RA; Luciani F, 2017, 'Understanding the complex evolution of rapidly mutating viruses with deep sequencing: Beyond the analysis of viral diversity', Virus Research, vol. 239, pp. 43 - 54, http://dx.doi.org/10.1016/j.virusres.2016.10.014
Eltahla AA; Rodrigo C; Betz-Stablein B; Grebely J; Applegate T; Luciani F; Schinkel J; Dore GJ; Page K; Bruneau J, 2017, 'Analysis of resistance-associated substitutions in acute hepatitis C virus infection by deep sequencing across six genotypes and three continents', Journal of Viral Hepatitis, vol. 24, pp. 37 - 42, http://dx.doi.org/10.1111/jvh.12615
Rodrigo C; Eltahla AA; Bull RA; Luciani F; Grebely J; Dore GJ; Applegate T; Page K; Bruneau J; Morris MD, 2017, 'Phylogenetic analysis of full-length, early infection, hepatitis C virus genomes among people with intravenous drug use: the InC3 Study', Journal of Viral Hepatitis, vol. 24, pp. 43 - 52, http://dx.doi.org/10.1111/jvh.12616
Keoshkerian E; Hunter M; Cameron B; Nguyen N; Sugden P; Bull R; Zekry A; Maher L; Seddiki N; Zaunders J, 2016, 'Hepatitis C-specific effector and regulatory CD4 T-cell responses are associated with the outcomes of primary infection', Journal of Viral Hepatitis, vol. 23, pp. 985 - 993, http://dx.doi.org/10.1111/jvh.12576
Rodrigo C; Eltahla AA; Bull RA; Grebely J; Dore GJ; Applegate T; Page K; Bruneau J; Morris MD; Cox AL, 2016, 'Historical Trends in the Hepatitis C Virus Epidemics in North America and Australia', Journal of Infectious Diseases, vol. 214, pp. 1383 - 1389, http://dx.doi.org/10.1093/infdis/jiw389
Walker MR; Li H; Teutsch S; Betz-Stablein B; Luciani F; Lloyd AR; Bull RA, 2016, 'Incident hepatitis c virus genotype distribution and multiple infection in australian prisons', Journal of Clinical Microbiology, vol. 54, pp. 1855 - 1861, http://dx.doi.org/10.1128/JCM.00287-16
Bull RA; Eltahla AA; Rodrigo C; Koekkoek SM; Walker M; Pirozyan MR; Betz-Stablein B; Toepfer A; Laird M; Oh S, 2016, 'A method for near full-length amplification and sequencing for six hepatitis C virus genotypes', BMC Genomics, vol. 17, http://dx.doi.org/10.1186/s12864-016-2575-8
Eltahla AA; Rizzetto S; Pirozyan MR; Betz-Stablein BD; Venturi V; Kedzierska K; Lloyd AR; Bull RA; Luciani F, 2016, 'Linking the T cell receptor to the single cell transcriptome in antigen-specific human T cells', Immunology and Cell Biology, vol. 94, pp. 604 - 611, http://dx.doi.org/10.1038/icb.2016.16
Bartlett SR; Jacka B; Bull RA; Luciani F; Matthews GV; Lamoury FMJ; Hellard ME; Hajarizadeh B; Teutsch S; White B, 2016, 'HIV infection and hepatitis C virus genotype 1a are associated with phylogenetic clustering among people with recently acquired hepatitis C virus infection', Infection, Genetics and Evolution, vol. 37, pp. 252 - 258, http://dx.doi.org/10.1016/j.meegid.2015.11.028
Bretaña NA; Boelen L; Bull R; Teutsch S; White PA; Lloyd AR; Luciani F; Dolan K; Haber P; Rawlinson W, 2015, 'Transmission of hepatitis C virus among prisoners, Australia, 2005–2012', Emerging Infectious Diseases, vol. 21, pp. 765 - 774, http://dx.doi.org/10.3201/eid2105.141832
Narayana SK; Helbig KJ; McCartney EM; Eyre NS; Bull RA; Eltahla A; Lloyd AR; Beard MR, 2015, 'The interferon-induced transmembrane proteins, IFITM1, IFITM2, and IFITM3 inhibit hepatitis C virus entry', Journal of Biological Chemistry, vol. 290, pp. 25946 - 25959, http://dx.doi.org/10.1074/jbc.M115.657346
Eltahla AA; Luciani F; White PA; Lloyd AR; Bull RA, 2015, 'Inhibitors of the hepatitis C virus polymerase; mode of action and resistance', Viruses, vol. 7, pp. 5206 - 5224, http://dx.doi.org/10.3390/v7102868
Lamoury FMJ; Jacka B; Bartlett S; Bull RA; Wong A; Amin J; Schinkel J; Poon AF; Matthews GV; Grebely J, 2015, 'The influence of hepatitis C virus genetic region on phylogenetic clustering analysis', PLoS ONE, vol. 10, http://dx.doi.org/10.1371/journal.pone.0131437
Bull RA; Leung P; Gaudieri S; Deshpande P; Cameron B; Walker M; Chopra A; Lloyd AR; Luciani F; Dolan K, 2015, 'Transmitted/founder viruses rapidly escape from CD8<sup>+</sup> T cell responses in acute hepatitis C virus infection', Journal of Virology, vol. 89, pp. 5478 - 5490, http://dx.doi.org/10.1128/JVI.03717-14
Mina MM; Luciani F; Cameron B; Bull RA; Beard MR; Booth D; Lloyd AR, 2015, 'Resistance to hepatitis C virus: Potential genetic and immunological determinants', The Lancet Infectious Diseases, vol. 15, pp. 451 - 460, http://dx.doi.org/10.1016/S1473-3099(14)70965-X
Leung P; Bull R; Lloyd A; Luciani F, 2014, 'Erratum to “A Bioinformatics Pipeline for the Analyses of Viral Escape Dynamics and Host Immune Responses during an Infection”.', BioMed research international, vol. 2014, http://dx.doi.org/10.1155/2014/680249
Leung P; Bull R; Lloyd A; Luciani F, 2014, 'A bioinformatics pipeline for the analyses of viral escape dynamics and host immune responses during an infection', BioMed Research International, vol. 2014, http://dx.doi.org/10.1155/2014/264519
Hartfield M; Bull R; White PA; Lloyd A; Luciani F; Alizon S, 2014, 'Evidence that hepatitis C virus genome partly controls infection outcome', Evolutionary Applications, vol. 7, pp. 533 - 547, http://dx.doi.org/10.1111/eva.12151
Töpfer A; Marschall T; Bull RA; Luciani F; Schönhuth A; Beerenwinkel N, 2014, 'Viral quasispecies assembly via maximal clique enumeration', Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), vol. 8394 LNBI, pp. 309 - 310, http://dx.doi.org/10.1007/978-3-319-05269-4-25
Wong KKY; Rockman S; Ong C; Bull R; Stelzer-Braid S; Rawlinson W, 2013, 'Comparison of influenza virus replication fidelity in vitro using selection pressure with monoclonal antibodies', Journal of Medical Virology, vol. 85, pp. 1090 - 1094, http://dx.doi.org/10.1002/jmv.23532
Sugden PB; Ratnarajah S; Cameron B; Bull R; Lloyd AR; Pham TNQ; Michalak TI; White PA, 2013, 'Rare occurrence of occult hepatitis C virus in apparently uninfected injecting drug users: A two-centre, masked, case-control study', Journal of Viral Hepatitis, http://dx.doi.org/10.1111/jvh.12098
Sugden PB; Cameron B; Bull R; White PA; Lloyd AR, 2012, 'Occult infection with hepatitis C virus: Friend or foe', Immunology and Cell Biology, vol. 90, pp. 763 - 773, http://dx.doi.org/10.1038/icb.2012.20
Bull RA; Eden JS; Luciani F; McElroy K; Rawlinson WD; White PA, 2012, 'Contribution of intra- and interhost dynamics to norovirus evolution', Journal of Virology, vol. 86, pp. 3219 - 3229, http://dx.doi.org/10.1128/JVI.06712-11
Grebely J; Pham ST; Matthews GV; Petoumenos K; Bull RA; Yeung B; Rawlinson W; Kaldor J; Lloyd A; Hellard M, 2012, 'Hepatitis C virus reinfection and superinfection among treated and untreated participants with recent infection', Hepatology, vol. 55, pp. 1058 - 1069, http://dx.doi.org/10.1002/hep.24754
Gouklani H; Bull RA; Beyer C; Coulibaly F; Gowans EJ; Drummer HE; Netter HJ; White PA; Haqshenas G, 2012, 'Hepatitis C virus nonstructural protein 5B is involved in virus morphogenesis', Journal of Virology, vol. 86, pp. 5080 - 5088, http://dx.doi.org/10.1128/JVI.07089-11
Luciani F; Bull RA; Lloyd AR, 2012, 'Next generation deep sequencing and vaccine design: Today and tomorrow', Trends in Biotechnology, vol. 30, pp. 443 - 452, http://dx.doi.org/10.1016/j.tibtech.2012.05.005
Bull RA; Hyde J; MacKenzie JM; Hansman GS; Oka T; Takeda N; White PA, 2011, 'Comparison of the replication properties of murine and human calicivirus RNA-dependent RNA polymerases', Virus Genes, vol. 42, pp. 16 - 27, http://dx.doi.org/10.1007/s11262-010-0535-y
Bull RA; White PA, 2011, 'Mechanisms of GII.4 norovirus evolution', Trends in Microbiology, vol. 19, pp. 233 - 240, http://dx.doi.org/10.1016/j.tim.2011.01.002
Bull RA; Luciani F; McElroy K; Gaudieri S; Pham ST; Chopra A; Cameron B; Maher L; Dore GJ; White PA, 2011, 'Sequential bottlenecks drive viral evolution in early acute hepatitis c virus infection', PLoS Pathogens, vol. 7, http://dx.doi.org/10.1371/journal.ppat.1002243
Wong KKY; Bull RA; Stelzer-Braid S; Fennell M; Rawlinson W, 2011, 'Effect of reassortment on the nucleotide and amino acid changes of human A/H3N2 RNP subunits during 1998-2009', Journal of Clinical Virology, vol. 51, pp. 270 - 275, http://dx.doi.org/10.1016/j.jcv.2011.05.013
Byun R; Sheppeard V; Bull R, 2010, 'Bug breakfast in the Bulletin: Gastroenteritis outbreaks in institutions.', New South Wales public health bulletin, vol. 21, pp. 267 - 268
Bull RA; Eden JS; Rawlinson WD; White PA, 2010, 'Rapid evolution of pandemic noroviruses of the GII.4 lineage', PLoS Pathogens, vol. 6, http://dx.doi.org/10.1371/journal.ppat.1000831
Eden JS; Bull RA; Tu E; McIver CJ; Lyon MJ; Marshall JA; Smith DW; Musto J; Rawlinson WD; White PA, 2010, 'Norovirus GII.4 variant 2006b caused epidemics of acute gastroenteritis in Australia during 2007 and 2008', Journal of Clinical Virology, vol. 49, pp. 265 - 271, http://dx.doi.org/10.1016/j.jcv.2010.09.001
Pham ST; Bull RA; Bennett JM; Rawlinson WD; Dore GJ; Lloyd AR; White PA, 2010, 'Frequent multiple hepatitis C virus infections among injection drug users in a prison setting', Hepatology, vol. 52, pp. 1564 - 1572, http://dx.doi.org/10.1002/hep.23885
Tu ETV; Bull RA; Greening GE; Hewitt J; Lyon MJ; Marshall JA; McIver CJ; Rawlinson WD; White PA, 2008, 'Epidemics of gastroenteritis during 2006 were associated with the spread of norovirus GII.4 variants 2006a and 2006b', Clinical Infectious Diseases, vol. 46, pp. 413 - 420, http://dx.doi.org/10.1086/525259
Tu ETV; Bull RA; Kim MJ; McIver CJ; Heron L; Rawlinson WD; White PA, 2008, 'Norovirus excretion in an aged-care setting', Journal of Clinical Microbiology, vol. 46, pp. 2119 - 2121, http://dx.doi.org/10.1128/JCM.02198-07
Tu ETV; Nguyen T; Lee P; Bull RA; Musto J; Hansman G; White PA; Rawlinson WD; McIver CJ, 2007, 'Norovirus GII.4 strains and outbreaks, Australia [10]', Emerging Infectious Diseases, vol. 13, pp. 1128 - 1130, http://dx.doi.org/10.3201/eid1307.060999
Bull RA; Tanaka MM; White PA, 2007, 'Norovirus recombination', Journal of General Virology, vol. 88, pp. 3347 - 3359, http://dx.doi.org/10.1099/vir.0.83321-0
Bull RA; Tu ETV; McIver CJ; Rawlinson WD; White PA, 2006, 'Emergence of a new norovirus genotype II.4 variant associated with global outbreaks of gastroenteritis', Journal of Clinical Microbiology, vol. 44, pp. 327 - 333, http://dx.doi.org/10.1128/JCM.44.2.327-333.2006
Bull RA; Hansman GS; Clancy LE; Tanaka MM; Rawlinson WD; White PA, 2005, 'Norovirus recombination in ORF1/ORF2 overlap', Emerging Infectious Diseases, vol. 11, pp. 1079 - 1085, http://dx.doi.org/10.3201/eid1107.041273
Leung P; Bull R; Lloyd A; Luciani F, 2016, 'Co-evolving mutations in hepatitis C virus in the context of immune escape against neutralising antibody responses - A bioinformatic workflow for the analysis of co-evolving mutations in viral genomes', in International Workshop on Artificial Immune Systems, AIS 2015/ICSI3 2015 - Systems Immunology, Immunoinformatics and Immune-computation: Immunology without Borders, Proceedings, http://dx.doi.org/10.1109/AISW.2015.7469236
Töpfer A; Marschall T; Bull RA; Luciani F; Schönhuth A; Beerenwinkel N, 2014, 'Viral quasispecies assembly via maximal clique enumeration', in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), pp. 309 - 310, http://dx.doi.org/10.1007/978-3-319-05269-4_25
Boelen L; Bull RA; Teutsch S; Lloyd AR; Luciani F, 2013, 'MOLECULAR EPIDEMIOLOGY AND SOCIAL NETWORK ANALYSIS TO TRACK HCV TRANSMISSION IN HIGH-RISK COMMUNITIES: INJECTING DRUG USERS IN PRISONS OF NEW SOUTH WALES, AUSTRALIA', in JOURNAL OF HEPATOLOGY, ELSEVIER SCIENCE BV, Amsterdam, NETHERLANDS, pp. S193 - S193, presented at International Liver Congress / 48th Annual Meeting of the European-Association-for-the-Study-of-the-Liver (EASL), Amsterdam, NETHERLANDS, 24 - 28 April 2013, http://dx.doi.org/10.1016/S0168-8278(13)60473-0
Luciani F; Bull RA; Cameron B; Gaudieri S; Nguyen N; Yuen D; White PA; Purcell DFJ; Foung S; Lloyd AR, 2012, 'IMMUNE RESPONSES AGAINST FOUNDER HEPATITIS C VIRUSES IN ACUTE ASYMPTOMATIC SUBJECTS', in JOURNAL OF HEPATOLOGY, ELSEVIER SCIENCE BV, Barcelona, SPAIN, pp. S312 - S312, presented at 47th Annual Meeting of the European-Association-for-the-Study-of-the-Liver (EASL), Barcelona, SPAIN, 18 - 22 April 2012, http://dx.doi.org/10.1016/S0168-8278(12)60809-5
Luciani F; Bull R; Mcelroy K; Pham S; Cameron B; Chopra A; Gaudieri S; Cooper D; Lloyd A; White P, 2011, 'EVOLUTIONARY DYNAMICS OF HEPATITIS C VIRUS DURING VERY EARLY INFECTIONS: VIROLOGICAL AND IMMUNOLOGICAL INSIGHTS', in JOURNAL OF HEPATOLOGY, ELSEVIER SCIENCE BV, Berlin, GERMANY, pp. S18 - S18, presented at 46th Annual Meeting of the European-Association-for-the-Study-of-the-Liver (EASL), Berlin, GERMANY, 01 January 2011, http://dx.doi.org/10.1016/S0168-8278(11)60040-8
Bull RA, 2008, Mechanisms of replication and genomic diversity in Human Caliciviruses
