By Professor Fabio Luciani

Journal articles

Singh M; Jackson KJL; Wang JJ; Schofield P; Field MA; Koppstein D; Peters TJ; Burnett DL; Rizzetto S; Nevoltris D; Masle-Farquhar E; Faulks ML; Russell A; Gokal D; Hanioka A; Horikawa K; Colella AD; Chataway TK; Blackburn J; Mercer TR; Langley DB; Goodall DM; Jefferis R; Gangadharan Komala M; Kelleher AD; Suan D; Rischmueller M; Christ D; Brink R; Luciani F; Gordon TP; Goodnow CC; Reed JH, 2020, 'Lymphoma Driver Mutations in the Pathogenic Evolution of an Iconic Human Autoantibody', Cell, 180, pp. 878 - 894.e19, http://dx.doi.org/10.1016/j.cell.2020.01.029

Samir J; Rizzetto S; Gupta M; Luciani F, 2020, 'Exploring and analysing single cell multi-omics data with VDJView', BMC Medical Genomics, 13, http://dx.doi.org/10.1186/s12920-020-0696-z

Lee KH; Gowrishankar K; Street J; McGuire HM; Luciani F; Hughes B; Singh M; Clancy LE; Gottlieb DJ; Micklethwaite KP; Blyth E, 2020, 'Ex vivo enrichment of PRAME antigen-specific T cells for adoptive immunotherapy using CD137 activation marker selection', Clinical and Translational Immunology, 9, http://dx.doi.org/10.1002/cti2.1200

McGuire HM; Rizzetto S; Withers BP; Clancy LE; Avdic S; Stern L; Patrick E; Fazekas de St Groth B; Slobedman B; Gottlieb DJ; Luciani F; Blyth E, 2020, 'Mass cytometry reveals immune signatures associated with cytomegalovirus (CMV) control in recipients of allogeneic haemopoietic stem cell transplant and CMV-specific T cells', Clinical and Translational Immunology, 9, pp. e1149, http://dx.doi.org/10.1002/cti2.1149

Bagaev DV; Vroomans RMA; Samir J; Stervbo U; Rius C; Dolton G; Greenshields-Watson A; Attaf M; Egorov ES; Zvyagin IV; Babel N; Cole DK; Godkin AJ; Sewell AK; Kesmir C; Chudakov DM; Luciani F; Shugay M, 2020, 'VDJdb in 2019: Database extension, new analysis infrastructure and a T-cell receptor motif compendium', Nucleic Acids Research, 48, pp. D1057 - D1062, http://dx.doi.org/10.1093/nar/gkz874

Walker MR; Leung P; Eltahla AA; Underwood A; Abayasingam A; Brasher NA; Li H; Wu BR; Maher L; Luciani F; Lloyd AR; Bull RA, 2019, 'Clearance of hepatitis C virus is associated with early and potent but narrowly-directed, Envelope-specific antibodies', Scientific Reports, 9, pp. 13300, http://dx.doi.org/10.1038/s41598-019-49454-w

Singh M; Al-Eryani G; Carswell S; Ferguson JM; Blackburn J; Barton K; Roden D; Luciani F; Giang Phan T; Junankar S; Jackson K; Goodnow CC; Smith MA; Swarbrick A, 2019, 'High-throughput targeted long-read single cell sequencing reveals the clonal and transcriptional landscape of lymphocytes', Nature Communications, 10, http://dx.doi.org/10.1038/s41467-019-11049-4

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, 2019, 'Higher abundance of enterovirus A species in the gut of children with islet autoimmunity', Scientific Reports, 9, pp. 1749, http://dx.doi.org/10.1038/s41598-018-38368-8

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, 2019, 'Genomic characterization of hepatitis C virus transmitted founder variants with deep sequencing', Infection, Genetics and Evolution, 71, pp. 36 - 41, http://dx.doi.org/10.1016/j.meegid.2019.02.032

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, 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 Pathogens, 15, pp. e1007772, http://dx.doi.org/10.1371/journal.ppat.1007772

Koutsakos M; Illing PT; Nguyen THO; Mifsud NA; Crawford JC; Rizzetto S; Eltahla AA; Clemens EB; Sant S; Chua BY; Wong CY; Allen EK; Teng D; Dash P; Boyd DF; Grzelak L; Zeng W; Hurt AC; Barr I; Rockman S; Jackson DC; Kotsimbos TC; Cheng AC; Richards M; Westall GP; Loudovaris T; Mannering SI; Elliott M; Tangye SG; Wakim LM; Rossjohn J; Vijaykrishna D; Luciani F; Thomas PG; Gras S; Purcell AW; Kedzierska K, 2019, 'Human CD8 ⁺ T cell cross-reactivity across influenza A, B and C viruses', Nature Immunology, 20, pp. 613 - 625, http://dx.doi.org/10.1038/s41590-019-0320-6

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', Journal of Infectious Diseases, 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; Cox AL; Osburn W; Kim AY; Shoukry NH; Lauer GM; Maher L; Schinkel J; Prins M; Hellard M; Eltahla AA, 2019, 'Genomic variability of within-host hepatitis C variants in acute infection', Journal of Viral Hepatitis, 26, pp. 476 - 484, http://dx.doi.org/10.1111/jvh.13051

Rodrigo C; Luciani F, 2019, 'Dynamic interactions between RNA viruses and human hosts unravelled by a decade of next generation sequencing', Biochimica et Biophysica Acta - General Subjects, 1863, pp. 511 - 519, http://dx.doi.org/10.1016/j.bbagen.2018.12.003

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, 8, pp. 11889, 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; 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, 2018, 'Clonally diverse CD38⁺HLA-DR⁺CD8⁺ T cells persist during fatal H7N9 disease', Nature Communications, 9, http://dx.doi.org/10.1038/s41467-018-03243-7

Moran I; Nguyen A; Khoo WH; Butt D; Bourne K; Young C; Hermes JR; Biro M; Gracie G; Ma CS; Munier CML; Luciani F; Zaunders J; Parker A; Kelleher AD; Tangye SG; Croucher PI; Brink R; Read MN; Phan TG, 2018, 'Memory B cells are reactivated in subcapsular proliferative foci of lymph nodes', Nature Communications, 9, pp. 3372, http://dx.doi.org/10.1038/s41467-018-05772-7

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, 10, pp. 659, http://dx.doi.org/10.3390/v10110659

Rizzetto S; Koppstein DNP; Samir J; Singh M; Reed JH; Cai CH; Lloyd AR; Eltahla AA; Goodnow CC; Luciani F, 2018, 'B-cell receptor reconstruction from single-cell RNA-seq with VDJPuzzle', Bioinformatics, 34, pp. 2846 - 2847, http://dx.doi.org/10.1093/BIOINFORMATICS/BTY171

Stern L; McGuire H; Avdic S; Rizzetto S; Fazekas de St Groth B; Luciani F; Slobedman B; Blyth E, 2018, 'Mass Cytometry for the assessment of immune reconstitution after hematopoietic stem cell transplantation', Frontiers in Immunology, 9, http://dx.doi.org/10.3389/fimmu.2018.01672

Cunningham EB; Hajarizadeh B; Amin J; Bretana N; Dore GJ; Degenhardt L; Larney S; Luciani F; Lloyd AR; Grebely J; Dolan K, 2018, 'Longitudinal injecting risk behaviours among people with a history of injecting drug use in an Australian prison setting: The HITS-p study', International Journal of Drug Policy, 54, pp. 18 - 25, http://dx.doi.org/10.1016/j.drugpo.2017.12.013

Shugay M; Bagaev DV; Zvyagin IV; Vroomans RM; Crawford JC; Dolton G; Komech EA; Sycheva AL; Koneva AE; Egorov ES; Eliseev AV; Van Dyk E; Dash P; Attaf M; Rius C; Ladell K; McLaren JE; Matthews KK; Clemens EB; Douek DC; Luciani F; Van Baarle D; Kedzierska K; Kesmir C; Thomas PG; Price DA; Sewell AK; Chudakov DM, 2018, 'VDJdb: A curated database of T-cell receptor sequences with known antigen specificity', Nucleic Acids Research, 46, pp. D419 - D427, http://dx.doi.org/10.1093/nar/gkx760

Singh M; Al-Eryani G; Carswell S; Ferguson J; Blackburn J; Barton K; Roden D; Luciani F; Phan T; Junankar S; Jackson K; Goodnow C; Smith M; Swarbrick A, 2018, 'High-throughput targeted long-read single cell sequencing reveals the clonal and transcriptional landscape of lymphocytes', , http://dx.doi.org/10.1101/424945

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, 7, pp. 12781, http://dx.doi.org/10.1038/s41598-017-12989-x

Merani S; Lucas M; Deshpande P; Pfafferott K; Chopra A; Cooper D; Leary S; Luciani F; Gaudieri S, 2017, 'Influence of transmitted virus on the host's immune response: A case study', Viral Immunology, 30, pp. 533 - 541, http://dx.doi.org/10.1089/vim.2017.0001

Cunningham EB; Hajarizadeh B; Bretana NA; Amin J; Betz-Stablein B; Dore GJ; Luciani F; Teutsch S; Dolan K; Lloyd AR; Grebely J; Haber P; Rawlinson W; Treloar C; Maher L, 2017, 'Ongoing incident hepatitis C virus infection among people with a history of injecting drug use in an Australian prison setting, 2005-2014: The HITS-p study', Journal of Viral Hepatitis, 24, pp. 733 - 741, http://dx.doi.org/10.1111/jvh.12701

Sierro F; Evrard M; Rizzetto S; Melino M; Mitchell AJ; Florido M; Beattie L; Walters SB; Tay SS; Lu B; Holz LE; Roediger B; Wong YC; Warren A; Ritchie W; McGuffog C; Weninger W; Le Couteur DG; Ginhoux F; Britton WJ; Heath WR; Saunders BM; McCaughan GW; Luciani F; MacDonald KPA; Ng LG; Bowen DG; Bertolino P, 2017, 'A Liver Capsular Network of Monocyte-Derived Macrophages Restricts Hepatic Dissemination of Intraperitoneal Bacteria by Neutrophil Recruitment', Immunity, 47, pp. 374 - 388.e6, http://dx.doi.org/10.1016/j.immuni.2017.07.018

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, 239, pp. 43 - 54, http://dx.doi.org/10.1016/j.virusres.2016.10.014

Luciani F; Paolantonio G; Calabrese C; Calabrese L, 2017, 'Cytology and molecular mechanisms of drug-induced gingival hypertrophy: A rewiew', ORAL and Implantology, 10, pp. 221 - 228, http://dx.doi.org/10.11138/orl/2017.10.3.221

Ottria L; Luciani F; Piva P; Alagna AM; Arcuri C; Bartuli FN, 2017, 'The flap recovery on the impacted lower third molar surgery comparing 3 different flap designs: A clinical study', ORAL and Implantology, 10, pp. 270 - 275, http://dx.doi.org/10.11138/orl/2017.10.3.270

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, 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, 49, pp. 88 - 96, http://dx.doi.org/10.1016/j.meegid.2017.01.006

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, 7, pp. 41719, http://dx.doi.org/10.1038/srep41719

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, 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, 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; Cox AL; Osburn W; Kim AY; Shoukry NH; Lauer GM; Maher L; Schinkel J; Prins M; Hellard M; Lloyd AR, 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, 24, pp. 43 - 52, http://dx.doi.org/10.1111/jvh.12616

Rizzetto S; Koppstein DNP; Samir J; Singh M; Reed J; Cai C; Lloyd A; Eltahla A; Goodnow C; Luciani F, 2017, 'B-cell receptor reconstruction from single-cell RNA-seq with VDJPuzzle', , http://dx.doi.org/10.1101/181156

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

Cunningham E; Amin J; Bretana NA; Luciani F; Degenhardt L; Larney S; Hajarizadeh B; Dore GJ; Lloyd A; Grebely J, 2017, 'P10 Injecting risk behaviours among people who inject drugs in an Australian prison setting, 2005–2014: the HITS-p study', Journal of Virus Eradication, 3, pp. 15 - 16, http://dx.doi.org/10.1016/s2055-6640(20)30751-2

Keoshkerian E; Hunter M; Cameron B; Nguyen N; Sugden P; Bull R; Zekry A; Maher L; Seddiki N; Zaunders J; Kelleher A; Lloyd AR; Dolan K; Haber P; Rawlinson W; Treloar C; Dore G; Luciani F, 2016, 'Hepatitis C-specific effector and regulatory CD4 T-cell responses are associated with the outcomes of primary infection', Journal of Viral Hepatitis, 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; Osburn W; Kim AY; Schinkel J; Shoukry NH; Lauer GM; Maher L; Hellard M; Prins M; Estes C; Razavi H; Lloyd AR; Luciani F, 2016, 'Historical Trends in the Hepatitis C Virus Epidemics in North America and Australia', Journal of Infectious Diseases, 214, pp. 1383 - 1389, http://dx.doi.org/10.1093/infdis/jiw389

Youngson N; Lecomte V; Maloney C; Leung P; Liu J; Hesson L; Luciani F; Krause L; Morris M; Liu JJ, 2016, 'Obesity-induced sperm DNA methylation changes at satellite repeats are reprogrammed in rat offspring', Asian Journal of Andrology, 18, pp. 930 - 936, http://dx.doi.org/10.4103/1008-682X.163190

Walker MR; Li H; Teutsch S; Betz-Stablein B; Luciani F; Lloyd AR; Bull RA; Dolan K; Maher L, 2016, 'Incident hepatitis c virus genotype distribution and multiple infection in australian prisons', Journal of Clinical Microbiology, 54, pp. 1855 - 1861, http://dx.doi.org/10.1128/JCM.00287-16

Eltahla AA; Rizzetto S; Pirozyan MR; Betz-Stablein BD; Venturi V; Kedzierska K; Lloyd AR; Bull RA; Luciani F; Maher L, 2016, 'Linking the T cell receptor to the single cell transcriptome in antigen-specific human T cells', Immunology and Cell Biology, 94, pp. 604 - 611, http://dx.doi.org/10.1038/icb.2016.16

Audsley J; Bent SJ; Littlejohn M; Avihingsanon A; Matthews G; Bowden S; Bayliss J; Luciani F; Yuen L; Fairley CK; Locarnini S; Lewin SR; Sasadeusz J, 2016, 'Effects of long-term tenofovir-based combination antiretroviral therapy in HIV-hepatitis B virus coinfection on persistent hepatitis B virus viremia and the role of hepatitis B virus quasispecies diversity', AIDS, 30, pp. 1597 - 1606, http://dx.doi.org/10.1097/QAD.0000000000001080

Fiches GN; Eyre NS; Aloia AL; Van Der Hoek K; Betz-Stablein B; Luciani F; Chopra A; Beard MR; Maher L, 2016, 'HCV RNA traffic and association with NS5A in living cells', Virology, 493, pp. 60 - 74, http://dx.doi.org/10.1016/j.virol.2016.02.016

Mina MM; Cameron B; Luciani F; Vollmer-Conna U; Lloyd AR; Dolan K; Maher L, 2016, 'Natural killer cells in highly exposed hepatitis C-seronegative injecting drug users', Journal of Viral Hepatitis, 23, pp. 464 - 472, http://dx.doi.org/10.1111/jvh.12511

Luciani F, 2016, 'High-throughput sequencing and vaccine design', OIE Revue Scientifique et Technique, 35, pp. 53 - 65, http://dx.doi.org/10.20506/rst.35.1.2417

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; Rasoli Pirozyan M, 2016, 'A method for near full-length amplification and sequencing for six hepatitis C virus genotypes', BMC Genomics, 17, pp. 247, http://dx.doi.org/10.1186/s12864-016-2575-8

Bartlett SR; Jacka B; Bull RA; Luciani F; Matthews GV; Lamoury FMJ; Hellard ME; Hajarizadeh B; Teutsch S; White B; Maher L; Dore GJ; Lloyd AR; Grebely J; Applegate TL, 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, 37, pp. 252 - 258, http://dx.doi.org/10.1016/j.meegid.2015.11.028

Betz-Stablein BD; Töpfer A; Littlejohn M; Yuen L; Colledge D; Sozzi V; Angus P; Thompson A; Revill P; Beerenwinkel N; Warner N; Luciani F, 2016, 'Single-molecule sequencing reveals complex genome variation of hepatitis B virus during 15 Years of chronic infection following liver transplantation', Journal of Virology, 90, pp. 7171 - 7183, http://dx.doi.org/10.1128/JVI.00243-16

Budzinska MA; Tu T; d'Avigdor WMH; McCaughan GW; Luciani F; Shackel NA, 2016, 'Accumulation of Deleterious Passenger Mutations Is Associated with the Progression of Hepatocellular Carcinoma.', PLoS One, 11, pp. e0162586, http://dx.doi.org/10.1371/journal.pone.0162586

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