By Professor Miles Davenport

Preprints

Cromer D; Reynaldi A; Hie A; Schlub T; Juno J; Wheatley A; Kent S; Khoury D; Davenport M, 2024, Predicting COVID-19 booster immunogenicity against future SARS-CoV-2 variants and the benefits of vaccine updates, , http://dx.doi.org/10.1101/2024.02.08.24302032

Wagstaffe HR; Thwaites RS; Reynaldi A; Sidhu JK; McKendry R; Ascough S; Papargyris L; Collins AM; Xu J; Lemm N-M; Siggins MK; Chain BM; Killingley B; Kalinova M; Mann A; Catchpole A; Davenport MP; Openshaw PJM; Chiu C, 2023, Mucosal and Systemic Immune Correlates of Viral Control following SARS-CoV-2 Infection Challenge in Seronegative Adults, , http://dx.doi.org/10.1101/2023.07.21.23292994

Lee WS; Tan H-X; Reynaldi A; Esterbauer R; Koutsakos M; Nguyen J; Amarasena T; Kent H; Aggarwal A; Turville S; Taiaroa G; Kinsella P; Liew KC; Tran T; Williamson D; Cromer D; Davenport M; Kent S; Juno J; Khoury D; Wheatley A, 2023, Durable reprogramming of neutralising antibody responses following breakthrough Omicron infection, , http://dx.doi.org/10.1101/2023.02.19.23286159

Selva KJ; Ramanathan P; Haycroft ER; Reynaldi A; Cromer D; Tan CW; Wang L-F; Wines B; Hogarth M; Downie L; Davis S; Purcell RA; Kent H; Juno J; Wheatley A; Davenport M; Kent SJ; Chung A, 2023, Lasting first impression: Pre-existing immunity restricts mucosal antibody responses during Omicron breakthrough, , http://dx.doi.org/10.1101/2023.03.28.23287848

Berry M; Khan S; Schlub T; Notaras A; Kunasekaran M; Grulich A; MacIntyre R; Davenport M; Khoury D, 2023, Predicting vaccine effectiveness in Mpox, , http://dx.doi.org/10.1101/2023.11.23.23298850

Elias K; Khan S; Stadler E; Schlub T; Cromer D; Polizzotto M; Kent S; Turner T; Davenport M; Khoury D, 2023, Viral clearance as a surrogate of clinical efficacy for COVID-19 therapies in outpatients: A systematic review and meta-analysis, , http://dx.doi.org/10.1101/2023.06.18.23291566

Koutsakos M; Reynaldi A; Lee WS; Nguyen J; Amarasena T; Taiaroa G; Kinsella P; Liew KC; Tran T; Kent HE; Tan H-X; Rowntree LC; Nguyen THO; Thomas PG; Kedzierska K; Petersen J; Rossjohn J; Williamson DA; Khoury D; Davenport MP; Kent SJ; Wheatley AK; Juno JA, 2022, Rapid recall andde novoT cell responses during SARS-CoV-2 breakthrough infection, , http://dx.doi.org/10.1101/2022.12.19.521129

Bauer A; Lindemuth E; Joy J; Marino FE; Docken SS; Krause R; Mallick S; McCormick K; Holt C; Georgiev I; Felber B; Keele BF; Veazey R; Davenport MP; Li H; Shaw GM; Bar KJ, 2022, Adaptation of a transmitted/founder simian-human immunodeficiency virus for enhanced replication in rhesus macaques, , http://dx.doi.org/10.1101/2022.12.12.520031

Watson NB; Patel RK; Oyesola OO; Laniewski N; Grenier JK; Wang J; Tabilas C; Yee Mon KJ; Peng SP; Wesnak SP; Nzingha K; Smith NL; Davenport MP; Tait Wojno ED; Scheible KM; Grimson A; Rudd BD, 2022, Lin28b specifies an innate-like lineage of CD8+ T cells in early life, , http://dx.doi.org/10.1101/2022.02.14.480406

Stadler E; Cromer D; Ogunlade S; Ongoiba A; Doumbo S; Kayentao K; Traore B; Crompton P; Portugal S; Davenport M; Khoury D, 2022, A role for super-spreaders in carrying malaria parasites across the months-long dry season, , http://dx.doi.org/10.1101/2022.04.28.22274398

Khoury D; Schlub T; Cromer D; Steain M; Fong Y; Gilbert P; Subbarao K; Triccas J; Kent S; Davenport M, 2022, Correlates of protection, thresholds of protection, and immunobridging in SARS-CoV-2 infection, , http://dx.doi.org/10.1101/2022.06.05.22275943

Stadler E; Chai KL; Schlub T; Cromer D; Polizzotto M; Kent S; Beecher C; White H; White H; Turner T; Skoetz N; Skoetz N; Estcourt L; McQuilten Z; Wood E; Khoury D; Davenport M, 2022, Determinants of passive antibody efficacy in SARS-CoV-2 infection, , http://dx.doi.org/10.1101/2022.03.21.22272672

Stadler E; Burgess M; Schlub T; Chai KL; McQuilten Z; Wood E; Polizzotto M; Kent S; Cromer D; Davenport M; Khoury D, 2022, Monoclonal antibody levels and protection from COVID-19, , http://dx.doi.org/10.1101/2022.11.22.22282199

Cromer D; Steain M; Reynaldi A; Schlub T; Sasson S; Kent S; Khoury D; Davenport MP, 2022, Neutralising antibodies predict protection from severe COVID-19, , http://dx.doi.org/10.1101/2022.06.09.22275942

Khoury D; Docken S; Subbarao K; Kent S; Davenport M; Cromer D, 2022, Predicting the efficacy of variant-modified COVID-19 vaccine boosters, , http://dx.doi.org/10.1101/2022.08.25.22279237

Stadler E; Cromer D; Mehra S; Adekunle A; Flegg J; Anstey N; Watson J; Chu C; Mueller I; Robinson L; Schlub T; Davenport M; Khoury D, 2022, Risk of Plasmodium vivax recurrences follows a 30-70 rule and indicates relapse heterogeneity in the population, , http://dx.doi.org/10.1101/2022.05.18.22275180

Goel RR; Painter MM; Apostolidis SA; Mathew D; Meng W; Rosenfeld AM; Lundgreen KA; Reynaldi A; Khoury DS; Pattekar A; Gouma S; Kuri-Cervantes L; Hicks P; Dysinger S; Hicks A; Sharma H; Herring S; Korte S; Baxter AE; Oldridge DA; Giles JR; Weirick ME; McAllister CM; Awofolaju M; Tanenbaum N; Drapeau EM; Dougherty J; Long S; D'Andrea K; Hamilton JT; McLaughlin M; Williams JC; Adamski S; Kuthuru O; UPenn COVID Processing Unit ; Frank I; Betts MR; Vella LA; Grifoni A; Weiskopf D; Sette A; Hensley SE; Davenport MP; Bates P; Luning Prak ET; Greenplate AR; Wherry EJ, 2021, mRNA Vaccination Induces Durable Immune Memory to SARS-CoV-2 with Continued Evolution to Variants of Concern., , http://dx.doi.org/10.1101/2021.08.23.457229

Lansink LIM; Engel JA; Lee HJ; Soon MSF; Williams CG; SheelaNair A; Pernold CPS; Laohamonthonkul P; Akter J; Stoll T; Hill MM; Talman AM; Russell A; Lawniczak M; Davenport MP; Khoury DS; Haque A, 2021, Systemic host inflammation induces stage-specific transcriptomic modification and slower maturation in malaria parasites, , http://dx.doi.org/10.1101/2021.08.18.456784

Golfinos AE; Gellerup DD; Schweigert H; Mathiaparanam J; Balgeman AJ; Weiler AM; Friedrich TC; Keele BF; Davenport MP; Venturi V; O'Connor SL, 2021, The Mucosal Barrier and Anti-Viral Immune Responses can Eliminate Portions of the Viral Population during Transmission and Early Viral Growth, , http://dx.doi.org/10.20944/preprints202105.0206.v1

Moriarty RV; Fesser N; Sutton MS; Venturi V; Davenport MP; Schlub T; O'Connor SL, 2021, Validation of multiplex PCR sequencing assay of SIV, , http://dx.doi.org/10.21203/rs.3.rs-35062/v2

Khoury D; Steain M; Triccas J; Sigal A; Davenport M; Cromer D, 2021, A meta-analysis of Early Results to predict Vaccine efficacy against Omicron, , http://dx.doi.org/10.1101/2021.12.13.21267748

Koutsakos M; Lee WS; Reynaldi A; Tan H-X; Gare G; Kinsella P; Liew KC; Williamson D; Kent H; Stadler E; Cromer D; Khoury D; Wheatley A; Juno J; Davenport M; Kent S, 2021, Dynamics of immune recall following SARS-CoV-2 vaccination or breakthrough infection, , http://dx.doi.org/10.1101/2021.12.23.21268285

Aggarwal A; Stella AO; Walker G; Akerman A; Milogiannakis V; Brilot F; Amatayakul-Chantler S; Roth N; Coppola G; Schofield P; Jackson J; Henry J; Mazigi O; Langley D; Lu Y; Forster C; McAllery S; Mathivanan V; Fichter C; Hoppe AC; Munier ML; Jack H-M; Cromer D; Darley D; Matthews G; Christ D; Khoury D; Davenport M; Rawlinson W; Kelleher A; Turville S, 2021, SARS-CoV-2 Omicron: evasion of potent humoral responses and resistance to clinical immunotherapeutics relative to viral variants of concern, , http://dx.doi.org/10.1101/2021.12.14.21267772

Moriarty RV; Fesser N; Sutton MS; Venturi V; Davenport MP; Schlub T; O'Connor SL, 2020, Validation of multiplex PCR sequencing assay of SIV, , http://dx.doi.org/10.21203/rs.3.rs-35062/v1

Juno JA; Tan H-X; Lee WS; Reynaldi A; Kelly HG; Wragg K; Esterbauer R; Kent HE; Batten CJ; Mordant FL; Gherardin NA; Pymm P; Dietrich MH; Scott NE; Tham W-H; Godfrey DI; Subbarao K; Davenport MP; Kent SJ; Wheatley AK, 2020, Immunogenic profile of SARS-CoV-2 spike in individuals recovered from COVID-19, , http://dx.doi.org/10.1101/2020.05.17.20104869

Lee WS; Selva KJ; Davis S; Wines B; Reynaldi A; Esterbauer R; Kelly H; Haycroft E; Tan H-X; Juno J; Wheatley A; Hogarth M; Cromer D; Davenport M; Chung A; Kent S, 2020, Decay of Fc-dependent antibody functions after mild to moderate COVID-19, , http://dx.doi.org/10.1101/2020.12.13.20248143

Wheatley A; Juno J; Wang J; Selva K; Reynaldi A; Tan H-X; Shi Lee W; Wragg K; Kelly H; Esterbauer R; Davis S; Kent H; Mordant F; Schlub T; Gordon D; Khoury D; Subbarao K; Cromer D; Gordon T; Chung A; Davenport M; Kent S, 2020, Evolution of immunity to SARS-CoV-2, , http://dx.doi.org/10.1101/2020.09.09.20191205

Soon M; Lee HJ; Engel J; Straube J; Thomas B; Clarke L; Laohamonthonkul P; Pernold C; Haldar R; Williams C; Lansink L; Koufariotis R; Lakis V; Wood S; Chen X; James K; Lönnberg T; Lane S; Davenport M; Khoury D; Svensson V; Teichmann S; Haque A, 2019, Transcriptome Dynamics Reveals Progressive Transition from Effector to Memory in CD4⁺T cells, , http://dx.doi.org/10.1101/675967

Aliota MT; Dudley DM; Newman CM; Weger-Lucarelli J; Stewart LM; Koenig MR; Breitbach ME; Weiler AM; Semler MR; Barry GL; Zarbock KR; Mohns MS; Mohr EL; Venturi V; Schultz-Darken N; Peterson E; Newton W; Schotzko ML; Simmons HA; Mejia A; Hayes JM; Capuano S; Davenport MP; Friedrich TC; Ebel GD; O’Connor SL; O’Connor DH, 2017, Molecularly barcoded Zika virus libraries to probein vivoevolutionary dynamics, , http://dx.doi.org/10.1101/221564

Cao P; Klonis N; Zaloumis S; Khoury DS; Cromer D; Davenport MP; Tilley L; Simpson JA; McCaw JM, 2017, A mechanistic model quantifies artemisinin-induced parasite growth retardation in blood-stage Plasmodium falciparum infection, , http://dx.doi.org/10.48550/arxiv.1701.05302

Koutsakos M; Reynaldi A; Lee WS; Nguyen J; Amarasena T; Taiaroa G; Kinsella P; Liew KC; Tran T; Kent H; Tan H-X; Rowntree LC; Nguyen THO; Thomas P; Kedzierska K; Petersen J; Rossjohn J; Williamson D; Khoury D; Davenport M; Kent SJ; Wheatley AK; Juno JA, Rapid Recall and <i>de novo</i> T Cell Responses During SARS-CoV-2 Breakthrough Infection, , http://dx.doi.org/10.2139/ssrn.4311124

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