By Dr Alexander Paul James Underwood

Journal articles

Vizgirda G; Underwood AP; Fahnøe U; Weis N; Ramirez S; Bukh J, 2025, 'Spike substitutions E484D, P812R and Q954H mediate ACE2-independent entry of SARS-CoV-2 across different cell lines', Plos One, 20, http://dx.doi.org/10.1371/journal.pone.0326419

Dalegaard MI; Winckelmann A; Fahnøe U; Underwood AP; Pedersen AG; Bollerup S; Bukh J; Weis N, 2025, 'Higher Rates of Viral Evolution in Chronic Hepatitis B Patients Linked to Predicted T Cell Epitopes', Viruses, 17, http://dx.doi.org/10.3390/v17050684

Fahnøe U; Feng S; Underwood AP; Jacobsen K; Ameri A; Blicher TH; Sølund CS; Rosenberg BR; Brix L; Weis N; Bukh J, 2025, 'T cell receptor usage and epitope specificity amongst CD8+ and CD4+ SARS-CoV-2-specific T cells', Frontiers in Immunology, 16, http://dx.doi.org/10.3389/fimmu.2025.1510436

Offersgaard A; Duarte Hernandez CR; Zhou Y; Duan Z; Gammeltoft KA; Hartmann KT; Fahnøe U; Marichal-Gallardo P; Alzua GP; Underwood AP; Sølund C; Weis N; Bonde JH; Christensen JP; Pedersen GK; Jensen HE; Holmbeck K; Bukh J; Gottwein JM, 2024, 'An inactivated SARS-CoV-2 vaccine based on a Vero cell culture-adapted high-titer virus confers cross-protection in small animals', Scientific Reports, 14, http://dx.doi.org/10.1038/s41598-024-67570-0

Walker MR; Underwood A; Björnsson KH; Raghavan SSR; Bassi MR; Binderup A; Pham LV; Ramirez S; Pinholt M; Dagil R; Knudsen AS; Idorn M; Soegaard M; Wang K; Ward AB; Salanti A; Bukh J; Barfod L, 2024, 'Broadly potent spike-specific human monoclonal antibodies inhibit SARS-CoV-2 Omicron sub-lineages', Communications Biology, 7, http://dx.doi.org/10.1038/s42003-024-06951-7

Underwood AP; Gupta M; Wu BR; Eltahla AA; Boo I; Wang JJ; Agapiou D; Abayasingam A; Reynaldi A; Keoshkerian E; Zhao Y; Brasher N; Walker MR; Bukh J; Maher L; Gordon T; Davenport MP; Luciani F; Drummer HE; Lloyd AR; Bull RA, 2024, 'B-cell characteristics define HCV reinfection outcome', Journal of Hepatology, 81, pp. 415 - 428, http://dx.doi.org/10.1016/j.jhep.2024.04.004

Pham LV; Underwood AP; Binderup A; Fahnøe U; Fernandez-Antunez C; Lopez-Mendez B; Ryberg LA; Galli A; Sølund C; Weis N; Ramirez S; Bukh J, 2024, 'Neutralisation resistance of SARS-CoV-2 spike-variants is primarily mediated by synergistic receptor binding domain substitutions', Emerging Microbes and Infections, 13, http://dx.doi.org/10.1080/22221751.2024.2412643

Underwood AP; Sølund C; Jacobsen K; Binderup A; Fernandez-Antunez C; Mikkelsen LS; Inekci D; Villadsen SL; Castruita JAS; Pinholt M; Fahnøe U; Ramirez S; Brix L; Weis N; Bukh J, 2024, 'Neutralizing antibody and CD8+ T cell responses following BA.4/5 bivalent COVID-19 booster vaccination in adults with and without prior exposure to SARS-CoV-2', Frontiers in Immunology, 15, http://dx.doi.org/10.3389/fimmu.2024.1353353

Underwood AP; Sølund C; Fernandez-Antunez C; Villadsen SL; Mikkelsen LS; Fahnøe U; Bollerup S; Winckelmann AA; Schneider UV; Binderup A; Vizgirda G; Sørensen AL; Vinten CN; Dalegaard MI; Ramirez S; Weis N; Bukh J, 2023, 'Durability and breadth of neutralisation following multiple antigen exposures to SARS-CoV-2 infection and/or COVID-19 vaccination', Ebiomedicine, 89, http://dx.doi.org/10.1016/j.ebiom.2023.104475

Smit MJ; Sander AF; Ariaans MBPA; Fougeroux C; Heinzel C; Fendel R; Esen M; Kremsner PG; ter Heine R; Wertheim HF; Idorn M; Paludan SR; Underwood AP; Binderup A; Ramirez S; Bukh J; Soegaard M; Erdogan SM; Gustavsson T; Clemmensen S; Theander TG; Salanti A; Hamborg M; de Jongh WA; McCall MBB; Nielsen MA; Mordmüller BG; Riis Paludan S; Dagil R; Goksøyr L; Hulen TM; Janitzek C; Jensen DS; Justesen S; Khalifé PK; Kreidenweiss A; Lança T; Lie-Andersen O; Teelen K; Vidal-Calvo E, 2023, 'First-in-human use of a modular capsid virus-like vaccine platform: an open-label, non-randomised, phase 1 clinical trial of the SARS-CoV-2 vaccine ABNCoV2', Lancet Microbe, 4, pp. e140 - e148, http://dx.doi.org/10.1016/S2666-5247(22)00337-8

Underwood AP; Gupta M; Wu B-R; Eltahla AA; Boo I; Wang JJ; Agapiou D; Abayasingam A; Reynaldi A; Keoshkerian E; Zhao Y; Brasher N; Walker MR; Bukh J; Maher L; Gordon T; Davenport M; Luciani F; Drummer HE; Lloyd AR; Bull RA, 2023, 'B Cell Signatures and Antibody Imprinting Define HCV Reinfection Outcome', , http://dx.doi.org/10.2139/ssrn.4418620

Fahnøe U; Ronit A; Berg RMG; Jørgensen SE; Mogensen TH; Underwood AP; Scheel TKH; Bukh J; Plovsing RR, 2022, 'A Distinct Dexamethasone-Dependent Gene Expression Profile in the Lungs of COVID-19 Patients', Journal of Infectious Diseases, 226, pp. 2137 - 2141, http://dx.doi.org/10.1093/infdis/jiac218

Sølund C; Underwood AP; Fernandez-Antunez C; Bollerup S; Mikkelsen LS; Villadsen SL; Fahnøe U; Winckelmann AA; Feng S; Nørløv Vinten CA; Dalegaard MI; Vizgirda G; Sørensen AL; Ramirez S; Bukh J; Weis N, 2022, 'Analysis of Neutralization Titers against SARS-CoV-2 in Health-Care Workers Vaccinated with Prime-Boost mRNA–mRNA or Vector–mRNA COVID-19 Vaccines', Vaccines, 10, http://dx.doi.org/10.3390/vaccines10010075

Underwood AP; Sølund C; Fernandez-Antunez C; Villadsen SL; Winckelmann AA; Bollerup S; Mikkelsen LS; Sørensen AL; Feng S; Fahnøe U; Lassauniere R; Fomsgaard A; Ramirez S; Weis N; Bukh J, 2021, 'Neutralisation titres against SARS-CoV-2 are sustained 6 months after onset of symptoms in individuals with mild COVID-19', Ebiomedicine, 71, http://dx.doi.org/10.1016/j.ebiom.2021.103519

Ramirez S; Fernandez-Antunez C; Galli A; Underwood A; Pham LV; Ryberg LA; Feng S; Pedersen MS; Mikkelsen LS; Belouzard S; Dubuisson J; Sølund C; Weis N; Gottwein JM; Fahnøe U; Bukh J, 2021, 'Overcoming culture restriction for SARS-CoV-2 in human cells facilitates the screening of compounds inhibiting viral replication', Antimicrobial Agents and Chemotherapy, 65, http://dx.doi.org/10.1128/AAC.00097-21

Lassaunière R; Fonager J; Rasmussen M; Frische A; Polacek C; Rasmussen TB; Lohse L; Belsham GJ; Underwood A; Winckelmann AA; Bollerup S; Bukh J; Weis N; Sækmose SG; Aagaard B; Alfaro-Núñez A; Mølbak K; Bøtner A; Fomsgaard A, 2021, 'In vitro Characterization of Fitness and Convalescent Antibody Neutralization of SARS-CoV-2 Cluster 5 Variant Emerging in Mink at Danish Farms', Frontiers in Microbiology, 12, http://dx.doi.org/10.3389/fmicb.2021.698944

Kalemera MD; Capella-Pujol J; Chumbe A; Underwood A; Bull RA; Schinkel J; Sliepen K; Grove J, 2021, 'Optimized cell systems for the investigation of hepatitis C virus E1E2 glycoproteins', Journal of General Virology, 102, http://dx.doi.org/10.1099/JGV.0.001512

Mina M; Underwood A; Eltahla A; Wu BR; Walker MR; Bull RA; Lloyd AR, 2020, 'Anti-envelope antibody responses in highly exposed seronegative individuals may be associated with protection from HCV infection', Journal of Viral Hepatitis, 27, pp. 1012 - 1021, http://dx.doi.org/10.1111/jvh.13339

Brasher NA; Eltahla AA; Underwood A; Boo I; Rizzetto S; Walker MR; Rodrigo C; Luciani F; Maher L; Drummer HE; Tedla N; Lloyd AR; Bull RA, 2020, 'B cell immunodominance in primary hepatitis C virus infection', Journal of Hepatology, 72, pp. 670 - 679, http://dx.doi.org/10.1016/j.jhep.2019.11.011

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

Wu BR; Eltahla AA; Keoshkerian E; Walker MR; Underwood A; Brasher NA; Agapiou D; Lloyd AR; Bull RA, 2019, 'A method for detecting hepatitis C envelope specific memory B cells from multiple genotypes using cocktail E2 tetramers', Journal of Immunological Methods, 472, pp. 65 - 74, http://dx.doi.org/10.1016/j.jim.2019.06.016

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

Masavuli MG; Wijesundara DK; Underwood A; Christiansen D; Earnest-Silveira L; Bull R; Torresi J; Gowans EJ; Grubor-Bauk B, 2019, 'A hepatitis C virus DNA vaccine encoding a secreted, oligomerized form of envelope proteins is highly immunogenic and elicits neutralizing antibodies in vaccinated mice', Frontiers in Immunology, 10, http://dx.doi.org/10.3389/fimmu.2019.01145

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

Castaño-Rodríguez N; Underwood AP; Merif J; Riordan SM; Rawlinson WD; Mitchell HM; Kaakoush NO, 2018, 'Gut microbiome analysis identifies potential etiological factors in acute gastroenteritis', Infection and Immunity, 86, pp. 10.1128/iai.00060 - 10.1128/iai.00018, http://dx.doi.org/10.1128/IAI.00060-18

Underwood AP; Kaakoush NO; Sodhi N; Merif J; Lee WS; Riordan SM; Rawlinson WD; Mitchell HM, 2016, 'Campylobacter concisus pathotypes are present at significant levels in patients with gastroenteritis', Journal of Medical Microbiology, 65, pp. 219 - 226, http://dx.doi.org/10.1099/jmm.0.000216

Preprints

Fahnøe U; Ronit A; Berg RMG; Jørgensen SE; Mogensen TH; Underwood AP; Scheel TKH; Bukh J; Plovsing RR, 2022, A unique dexamethasone-dependent gene expression profile in the lungs of COVID-19 patients, http://dx.doi.org/10.1101/2022.01.12.22269048

Kalemera M; Cappella-Pujol J; Chumbe A; Underwood A; Bull R; Schinkel J; Sliepen K; Grove J, 2020, Optimised cell systems for the investigation of hepatitis C virus E1E2 glycoproteins, http://dx.doi.org/10.1101/2020.06.18.159442

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