Professor Thushan de Silva

MBChB BSc (Hons) DTM&H MRCP FRCPath PhD

Department of Infection, Immunity and Cardiovascular Disease

Professor of Infectious Diseases

Honorary Consultant Physician in Infectious Diseases

t.desilva@sheffield.ac.uk
+44 114 215 9532

+44 114 271 1863 (Fax)

The Medical School

Full contact details

Professor Thushan de Silva
Department of Infection, Immunity and Cardiovascular Disease
The Medical School
Beech Hill Road
Sheffield
S10 2RX

Profile

For enquiries, please contact – iicd-om-operational@sheffield.ac.uk

I am a clinician scientist with research interests in clinical discovery science, focused on infectious diseases, vaccines and global health.

I completed my undergraduate medical training at the University of Bristol in 2000. Following postgraduate clinical training in General Internal Medicine, Infectious Diseases and HIV in Oxford and London, I moved to Sheffield for higher specialist training in Infectious Diseases & Microbiology in 2004. After moving to The MRC Unit The Gambia in 2007, I was awarded a British Infection Society Research Fellowship (2007-8), followed by a MRC Clinical Research Training Fellowship and PhD (2008 – 11) under the supervision of Professor Sarah Rowland-Jones and Professor Robin Weiss, to study the pathogenesis of HIV-2 infection and the molecular epidemiology of HIV-1 and HIV-2 in West Africa.

I joined the University of Sheffield in 2013 as an NIHR Academic Clinical Lecturer in Infectious Diseases & Microbiology. I was awarded a Wellcome Trust Intermediate Clinical Fellowship (2016 -2021), based between Imperial College London and the MRC Unit The Gambia, to study the immunogenicity of intranasal Live Attenuated Influenza Vaccine in children and bidirectional interactions with nasopharyngeal microbiota. I returned to the University of Sheffield as a Senior Clinical Lecturer in 2020 and led a programme of SARS-CoV-2 research through the COVID-19 pandemic, including roles as lead PI in Sheffield for the COG-UK consortium and the PITCH study. I was awarded an MBE in 2021 for services to COVID-19 research.

I am part of the Clinical Infection Research Group (CIRG) in the Department of Infection, Immunity and Cardiovascular Disease (IICD), along with Prof. Sarah Rowland-Jones, Dr. Tom Darton , Dr. Paul Collini and Dr. Ruth Payne. I have been an Honorary Consultant Physician in Infectious Diseases at the South Yorkshire Regional Department of Infection and Tropical Medicine in Sheffield since 2016. I continue to be a Visiting Scientist and Principal Investigator in the Vaccines and Immunity Theme at the MRC Unit The Gambia at LSHTM and am also an Honorary Associate Professor at the London School of Hygiene and Tropical Medicine.

Research interests

My work involves applied immunology and genomics in clinical trials and observational studies in the following broad areas:

Anti-viral immune responses in the context of vaccination and infection. Building on skills gained during my PhD, which characterised HIV-specific humoral and T-cell correlates of protection from disease progression in HIV-2 infection, a major focus now is characterising mucosal and systemic immunity to influenza and SARS-CoV-2 in the UK and Africa, including the impact of immunocompromising conditions.

The molecular epidemiology of respiratory viruses. As part of the COG-UK consortium, I led SARS-CoV-2 sequencing in Sheffield, with a specific interest in the use of sequencing to track hospital transmissions. Current projects are focusing on characterising the molecular epidemiology and household transmission of respiratory viruses in The Gambia, as well as evaluating and applying novel diagnostics and sequencing for viral detection in clinical use and surveillance.

The epidemiology and immune responses to Streptococcus pyogenes. Driven by the need to understand the burden of S. pyogenes in Rheumatic Deart Disease endemic countries like The Gambia, I am increasingly involved in observational studies of S. pyogenes transmission and immunity as part of the MRC Gambia StrepA study group.

Key Current Projects

Mucosal and systemic immunity to influenza and SARS-CoV-2

Immunogenicity of intranasal live attenuated influenza vaccination (LAIV) and bidirectional interactions with the host microbiome in Gambian children (Wellcome Trust Intermediate Clinical Fellowship, 2016 – 2021). Key collaborators: Dr. Helder Nakaya, University of Sao Paulo and Prof. Debby Bogaert, University of Edinburgh.
Immunological imprinting of Live Attenuated Influenza Vaccine in children naïve vs exposed to influenza viruses; with Prof. Florian Krammer, Icahn School of Medicine at Mount Sinai, New York (Bill and Melinda Gates Foundation, 2019 – 2022).
Study of SARS-CoV-2 T-cell and antibody responses as part of the PITCH study, ISARIC4C consortium, UK Coronavirus Immunology Consortium (UK-CIC) and OCTAVE study.
Part of a consortium to establish a Global Paediatric Cell Atlas of Nasal and Oral Mucosa (Chan Zuckerberg Initiative, 2021 – 2024).

Molecular epidemiology of respiratory viruses

University of Sheffield lead for the COVID-19 Genomics Consortium UK (COG-UK), using Oxford Nanopore Technology (ONT) to sequence SARS-CoV-2 isolates in South Yorkshire. Building on our group’s sequencing expertise gained during this project, we are now focusing on optimising ONT-based assays with direct utility in NHS diagnostic microbiology and virology laboratories. This aligns work with key deliverables within the Infection and Immunity Theme of NIHR Sheffield Biomedical Research Centre (BRC).
Collaboration with Prof. Carl Smythe, to help evaluate how well a novel SARS-CoV-2 diagnostic device can detect infectious SARS-CoV-2 virus.
Surveillance for SARS-CoV-2 and other respiratory viruses by establishment of a sentinel surveillance platform for influenza-like illness in The Gambia, along with a household transmission cohort (TransVir) with Prof. Beate Kampmann.

The epidemiology and immune responses to Streptococcus pyogenes

Several clinical and molecular epidemiology studies forming part of the MRC Unit The Gambia Strep A research portfolio, as part of a Strategic Partnership Award between the University of Sheffield and the MRC Gambia (UoS GCRF), with Dr. Claire Turner, MBB, and key collaborators Dr. Michael Marks, LSHTM; Dr. Annette Erhart, MRCG and Dr. Abdul Karim Sesay, MRCG. I am co-supervisor for two Wellcome Trust Clinical PhD Training Fellows in Global Health (Dr. Edwin Armitage and Dr. Alex Keeley) who will use the platform of a household transmission study (SpyCATS) to explore transmission and natural immunity to S. pyogenes.

Publications

Show: Featured publications All publications

Featured publications

Journal articles

Kanteh A, Jallow HS, Manneh J, Sanyang B, Kujabi MA, Ndure SL, Jarju S, Sey AP, Damilare K D, Bah Y , Sambou S et al (2023) Genomic epidemiology of SARS-CoV-2 infections in The Gambia: an analysis of routinely collected surveillance data between March, 2020, and January, 2022. The Lancet Global Health, 11(3), e414-e424.
Miller PDE, Patel SR, Skinner R, Dignan F, Richter A, Jeffery K, Khan A, Heath PT, Clark A, Orchard K , Snowden JA et al (2023) Joint consensus statement on the vaccination of adult and paediatric haematopoietic stem cell transplant recipients: Prepared on behalf of the British society of blood and marrow transplantation and cellular therapy (BSBMTCT), the Children's cancer and Leukaemia Group (CCLG), and British Infection Association (BIA). Journal of Infection, 86(1), 1-8.
Longet S, Hargreaves A, Healy S, Brown R, Hornsby HR, Meardon N, Tipton T, Barnes E, Dunachie S, Duncan CJA , Klenerman P et al (2022) mRNA vaccination drives differential mucosal neutralizing antibody profiles in naïve and SARS-CoV-2 previously-infected individuals. Frontiers in Immunology, 13. View this article in WRRO
Costa-Martins AG, Mane K, Lindsey BB, Ogava RLT, Castro IC, Jagne YJ, Sallah HJ, Armitage EP, Jarju S, Ahadzie B , Ellis-Watson R et al (2022) Prior upregulation of interferon pathways in the nasopharynx impacts viral shedding following live attenuated influenza vaccine challenge in children. Cell Reports Medicine, 3(2), 100516-100516.
Lindsey BB, Villabona-Arenas CJ, Campbell F, Keeley AJ, Parker MD, Shah DR, Parsons H, Zhang P, Kakkar N, Gallis M , Foulkes BH et al (2022) Characterising within-hospital SARS-CoV-2 transmission events using epidemiological and viral genomic data across two pandemic waves. Nature Communications, 13(1). View this article in WRRO
Angyal A, Longet S, Moore SC, Payne RP, Harding A, Tipton T, Rongkard P, Ali M, Hering LM, Meardon N , Austin J et al (2022) T-cell and antibody responses to first BNT162b2 vaccine dose in previously infected and SARS-CoV-2-naive UK health-care workers: a multicentre prospective cohort study. The Lancet Microbe, 3(1), e21-e31. View this article in WRRO
Peno C, Armitage EP, Clerc M, Balcazar Lopez C, Jagne YJ, Drammeh S, Jarju S, Sallah H, Senghore E, Lindsey BB , Camara J et al (2021) The effect of live attenuated influenza vaccine on pneumococcal colonisation densities among children aged 24–59 months in The Gambia: a phase 4, open label, randomised, controlled trial. The Lancet Microbe, 2(12), e656-e665.
Payne RP, Longet S, Austin JA, Skelly DT, Dejnirattisai W, Adele S, Meardon N, Faustini S, Al-Taei S, Moore SC , Tipton T et al (2021) Immunogenicity of standard and extended dosing intervals of BNT162b2 mRNA vaccine. Cell, 184(23), 5699-5714.e11.
de Silva TI, Liu G, Lindsey BB, Dong D, Moore SC, Hsu NS, Shah D, Wellington D, Mentzer AJ, Angyal A , Brown R et al (2021) The impact of viral mutations on recognition by SARS-CoV-2 specific T-cells. iScience, 103353-103353.
Colton H, Greenfield DM, Snowden JA, Miller PDE, Morley NJ, Wright J, Darton TC, Evans CM & de Silva TI (2021) Long-term survivors following autologous haematopoetic stem cell transplantation have significant defects in their humoral immunity against vaccine preventable diseases, years on from transplant. Vaccine, 39(34), 4778-4783.
Weissman D, Alameh M-G, de Silva T, Collini P, Hornsby H, Brown R, LaBranche CC, Edwards RJ, Sutherland L, Santra S , Mansouri K et al (2020) D614G Spike mutation increases SARS CoV-2 susceptibility to neutralization. Cell Host & Microbe.
Minter A, Hoschler K, Jagne YJ, Sallah H, Armitage E, Lindsey B, Hay JA, Riley S, de Silva TI & Kucharski A (2020) Estimation of seasonal influenza attack rates and antibody dynamics in children using cross-sectional serological data. The Journal of Infectious Diseases. View this article in WRRO
Korber B, Fischer WM, Gnanakaran S, Yoon H, Theiler J, Abfalterer W, Hengartner N, Giorgi EE, Bhattacharya T, Foley B , Hastie KM et al (2020) Tracking changes in SARS-CoV-2 Spike: evidence that D614G increases infectivity of the COVID-19 virus. Cell. View this article in WRRO
Jarju S, Greenhalgh K, Wathuo M, Banda M, Camara B, Mendy S, Sowe G, Dahaba PO, Jammeh L, Bajinka Y , Sanneh P et al (2020) Viral Etiology, Clinical Features and Antibiotic Use in Children <5 Years of Age in the Gambia Presenting With Influenza-like Illness. Pediatric Infectious Disease Journal, Publish Ahead of Print.
Armitage EP, Senghore E, Darboe S, Barry M, Camara J, Bah S, Marks M, Cerami C, Roca A, Antonio M , Turner CE et al (2019) High burden and seasonal variation of paediatric scabies and pyoderma prevalence in the Gambia : a cross-sectional study. PLOS Neglected Tropical Diseases, 13(10). View this article in WRRO
de Lima DS, Cardozo LE, Maracaja-Coutinho V, Suhrbier A, Mane K, Jeffries D, Silveira ELV, Amaral PP, Rappuoli R, de Silva TI & Nakaya HI (2019) Long noncoding RNAs are involved in multiple immunological pathways in response to vaccination. Proceedings of the National Academy of Sciences, 116(34), 17121-17126. View this article in WRRO
Lindsey BB, Jagne YJ, Armitage EP, Singanayagam A, Sallah HJ, Drammeh S, Senghore E, Mohammed NI, Jeffries D, Höschler K , Tregoning JS et al (2019) Effect of a Russian-backbone live-attenuated influenza vaccine with an updated pandemic H1N1 strain on shedding and immunogenicity among children in The Gambia : an open-label, observational, phase 4 study. The Lancet Respiratory Medicine. View this article in WRRO
Lindsey BB, Armitage EP, Kampmann B & de Silva TI (2018) The efficacy, effectiveness, and immunogenicity of influenza vaccines in Africa: a systematic review. The Lancet Infectious Diseases. View this article in WRRO
de Silva TI, Gould V, Mohammed NI, Cope A, Meijer A, Zutt I, Reimerink J, Kampmann B, Hoschler K, Zambon M & Tregoning JS (2017) Comparison of mucosal lining fluid sampling methods and influenza-specific IgA detection assays for use in human studies of influenza immunity. Journal of Immunological Methods.
de Silva TI, Peng Y, Leligdowicz A, Zaidi I, Li L, Griffin H, Blais M-E, Vincent T, Saraiva M, Yindom L-M , van Tienen C et al (2013) Correlates of T-cell–mediated viral control and phenotype of CD8+ T cells in HIV-2, a naturally contained human retroviral infection. Blood, 121(21), 4330-4339.
de Silva TI, Aasa-Chapman M, Cotten M, Hue S, Robinson J, Bibollet-Ruche F, Sarge-Njie R, Berry N, Jaye A, Aaby P , Whittle H et al (2012) Potent Autologous and Heterologous Neutralizing Antibody Responses Occur in HIV-2 Infection across a Broad Range of Infection Outcomes. Journal of Virology, 86(2), 930-946.
Carabelli AM, Peacock TP, Thorne LG, Harvey WT, Hughes J, de Silva TI, Peacock SJ, Barclay WS, de Silva TI, Towers GJ & Robertson DL () SARS-CoV-2 variant biology: immune escape, transmission and fitness. Nature Reviews Microbiology.

All publications

Journal articles

Dijokaite-Guraliuc A, Das R, Zhou D, Ginn HM, Liu C, Duyvesteyn HME, Huo J, Nutalai R, Supasa P, Selvaraj M , de Silva TI et al (2023) Rapid escape of new SARS-CoV-2 Omicron variants from BA.2 directed antibody responses.. Cell Reports, 112271-112271.
Moore SC, Kronsteiner B, Longet S, Adele S, Deeks AS, Liu C, Dejnirattisai W, Reyes LS, Meardon N, Faustini S , Al-Taei S et al (2023) Evolution of long-term vaccine-induced and hybrid immunity in healthcare workers after different COVID-19 vaccine regimens. Med.
Kanteh A, Jallow HS, Manneh J, Sanyang B, Kujabi MA, Ndure SL, Jarju S, Sey AP, Damilare K D, Bah Y , Sambou S et al (2023) Genomic epidemiology of SARS-CoV-2 infections in The Gambia: an analysis of routinely collected surveillance data between March, 2020, and January, 2022. The Lancet Global Health, 11(3), e414-e424.
Turtle L, Thorpe M, Drake TM, Swets M, Palmieri C, Russell CD, Ho A, Aston S, Wootton DG, Richter A , de Silva TI et al (2023) Outcome of COVID-19 in hospitalised immunocompromised patients: an analysis of the WHO ISARIC CCP-UK prospective cohort study. PLoS Medicine, 20(1).
Liew F, Talwar S, Cross A, Willett BJ, Scott S, Logan N, Siggins MK, Swieboda D, Sidhu JK, Efstathiou C , Moore SC et al (2023) SARS-CoV-2-specific nasal IgA wanes 9 months after hospitalisation with COVID-19 and is not induced by subsequent vaccination. eBioMedicine, 87.
Miller PDE, Patel SR, Skinner R, Dignan F, Richter A, Jeffery K, Khan A, Heath PT, Clark A, Orchard K , Snowden JA et al (2023) Joint consensus statement on the vaccination of adult and paediatric haematopoietic stem cell transplant recipients: Prepared on behalf of the British society of blood and marrow transplantation and cellular therapy (BSBMTCT), the Children's cancer and Leukaemia Group (CCLG), and British Infection Association (BIA). Journal of Infection, 86(1), 1-8.
Huo J, Dijokaite-Guraliuc A, Liu C, Zhou D, Ginn HM, Das R, Supasa P, Selvaraj M, Nutalai R, Tuekprakhon A , Duyvesteyn HME et al (2022) A delicate balance between antibody evasion and ACE2 affinity for Omicron BA.2.75. Cell Reports, 111903-111903.
Colton H, Parker MD, Stirrup O, Blackstone J, Loose M, McClure CP, Roy S, Williams C, McLeod J, Smith D , Taha Y et al (2022) Factors affecting turnaround time of SARS-CoV-2 sequencing for inpatient infection prevention and control decision making: Analysis of data from the COG-UK HOCI study. Journal of Hospital Infection.
Stirrup O, Blackstone J, Mapp F, MacNeil A, Panca M, Holmes A, Machin N, Shin GY, Mahungu T, Saeed K , Saluja T et al (2022) Effectiveness of rapid SARS-CoV-2 genome sequencing in supporting infection control for hospital-onset COVID-19 infection: multicenter, prospective study. eLife, 11.
Longet S, Hargreaves A, Healy S, Brown R, Hornsby HR, Meardon N, Tipton T, Barnes E, Dunachie S, Duncan CJA , Klenerman P et al (2022) mRNA vaccination drives differential mucosal neutralizing antibody profiles in naïve and SARS-CoV-2 previously-infected individuals. Frontiers in Immunology, 13. View this article in WRRO
Boswell MT, Nazziwa J, Kuroki K, Palm A, Karlson S, Månsson F, Biague A, da Silva ZJ, Onyango CO, de Silva TI , Jaye A et al (2022) Intrahost evolution of the HIV-2 capsid correlates with progression to AIDS. Virus Evolution, 8(2).
Sanyang B, de Silva TI, Kanteh A, Bojang A, Manneh J, de Steenhuijsen Piters WAA, Peno C, Bogaert D, Sesay AK & Roca A (2022) Effect of intra-partum azithromycin on the development of the infant nasopharyngeal microbiota: a post hoc analysis of a double-blind randomized trial. eBioMedicine, 83.
Parker MD, Stewart H, Shehata OM, Lindsey BB, Shah DR, Hsu S, Keeley AJ, Partridge DG, Leary S, Cope A , State A et al (2022) Altered subgenomic RNA abundance provides unique insight into SARS-CoV-2 B.1.1.7/Alpha variant infections.. Commun Biol, 5(1), 666.
Colton H, Hodgson D, Hornsby H, Brown R, Mckenzie J, Bradley KL, James C, Lindsey BB, Birch S, Marsh L , Wood S et al (2022) Risk factors for SARS-CoV-2 seroprevalence following the first pandemic wave in UK healthcare workers in a large NHS Foundation Trust. Wellcome Open Research, 6, 220.
Relph KA, Russell CD, Fairfield CJ, Turtle L, de Silva TI, Siggins MK, Drake TM, Thwaites RS, Abrams S, Moore SC , Hardwick HE et al (2022) Procalcitonin Is Not a Reliable Biomarker of Bacterial Coinfection in People With Coronavirus Disease 2019 Undergoing Microbiological Investigation at the Time of Hospital Admission. Open Forum Infectious Diseases, 9(5).
Blackstone J, Stirrup O, Mapp F, Panca M, Copas A, Flowers P, Hockey L, Price J, Partridge D, Peters C , de Silva T et al (2022) Protocol for the COG-UK hospital-onset COVID-19 infection (HOCI) multicentre interventional clinical study: evaluating the efficacy of rapid genome sequencing of SARS-CoV-2 in limiting the spread of COVID-19 in UK NHS hospitals. BMJ Open, 12(4), e052514-e052514.
Locke T, Parsons H, Briffa N, Stott M, de Silva TI & Darton TC (2022) A bundle of infection control measures reduces post-operative sternal wound infection due to Staphylococcus aureus but not Gram-negative bacteria: a retrospective analysis of 6,903 patient episodes. Journal of Hospital Infection.
Tomic A, Skelly DT, Ogbe A, O’Connor D, Pace M, Adland E, Alexander F, Ali M, Allott K, Azim Ansari M , Belij-Rammerstorfer S et al (2022) Divergent trajectories of antiviral memory after SARS-CoV-2 infection. Nature Communications, 13(1).
Ranasinghe D, Jeewandara C, Jayathilaka D, Ariyarathne D, Jayadas T, Madushanka D, Gomes L, Ogg G, Parker M, De Silva T & Malavige N (2022) Sub-genomic RNA Expression in SARS-CoV-2 B.1.411 and B.1.1.7 Infections in Sri Lanka. International Journal of Infectious Diseases, 116, S24-S24.
Lindsey BB, Villabona-Arenas CJ, Campbell F, Keeley AJ, Parker MD, Shah DR, Parsons H, Zhang P, Kakkar N, Gallis M , Foulkes BH et al (2022) Publisher Correction: Characterising within-hospital SARS-CoV-2 transmission events using epidemiological and viral genomic data across two pandemic waves. Nature Communications, 13(1).
Costa-Martins AG, Mane K, Lindsey BB, Ogava RLT, Castro IC, Jagne YJ, Sallah HJ, Armitage EP, Jarju S, Ahadzie B , Ellis-Watson R et al (2022) Prior upregulation of interferon pathways in the nasopharynx impacts viral shedding following live attenuated influenza vaccine challenge in children. Cell Reports Medicine, 3(2), 100516-100516.
Lindsey BB, Villabona-Arenas CJ, Campbell F, Keeley AJ, Parker MD, Shah DR, Parsons H, Zhang P, Kakkar N, Gallis M , Foulkes BH et al (2022) Characterising within-hospital SARS-CoV-2 transmission events using epidemiological and viral genomic data across two pandemic waves. Nature Communications, 13(1). View this article in WRRO
Cencioni MT, Genchi A, Brittain G, de Silva TI, Sharrack B, Snowden JA, Alexander T, Greco R & Muraro PA (2022) Immune reconstitution following autologous hematopoietic stem cell transplantation for multiple sclerosis : a review on behalf of the EBMT autoimmune diseases working party. Frontiers in Immunology, 12. View this article in WRRO
Jagne I, Keeley AJ, Bojang A, Camara B, Jallow E, Senghore E, Oluwalana C, Bah SY, Turner CE, Sesay AK , D’Alessandro U et al (2022) Impact of intra-partum azithromycin on carriage of group A streptococcus in the Gambia: a posthoc analysis of a double-blind randomized placebo-controlled trial. BMC Infectious Diseases, 22(1).
Angyal A, Longet S, Moore SC, Payne RP, Harding A, Tipton T, Rongkard P, Ali M, Hering LM, Meardon N , Austin J et al (2022) T-cell and antibody responses to first BNT162b2 vaccine dose in previously infected and SARS-CoV-2-naive UK health-care workers: a multicentre prospective cohort study. The Lancet Microbe, 3(1), e21-e31. View this article in WRRO
Costa-Martins AG, Mane K, Lindsey BB, Ogava RLT, Castro Í, Jagne YJ, Sallah HJ, Armitage EP, Jarju S, Ahadzie B , Ellis-Watson R et al (2021) Prior upregulation of interferon pathways in the nasopharynx impacts viral shedding following live attenuated influenza vaccine challenge in children. Cell Reports Medicine, 2(12). View this article in WRRO
Peno C, Armitage EP, Clerc M, Balcazar Lopez C, Jagne YJ, Drammeh S, Jarju S, Sallah H, Senghore E, Lindsey BB , Camara J et al (2021) The effect of live attenuated influenza vaccine on pneumococcal colonisation densities among children aged 24–59 months in The Gambia: a phase 4, open label, randomised, controlled trial. The Lancet Microbe, 2(12), e656-e665.
Payne RP, Longet S, Austin JA, Skelly DT, Dejnirattisai W, Adele S, Meardon N, Faustini S, Al-Taei S, Moore SC , Tipton T et al (2021) Immunogenicity of standard and extended dosing intervals of BNT162b2 mRNA vaccine. Cell, 184(23), 5699-5714.e11.
Boshier FAT, Venturini C, Stirrup O, Guerra-Assunção JA, Alcolea-Medina A, Becket AH, Byott M, Charalampous T, Filipe ADS, Frampton D , Glaysher S et al (2021) The Alpha variant was not associated with excess nosocomial SARS-CoV-2 infection in a multi-centre UK hospital study.. J Infect.
de Silva TI, Liu G, Lindsey BB, Dong D, Moore SC, Hsu NS, Shah D, Wellington D, Mentzer AJ, Angyal A , Brown R et al (2021) The impact of viral mutations on recognition by SARS-CoV-2 specific T-cells. iScience, 103353-103353.
Stirrup O, Boshier F, Venturini C, Guerra-Assunção JA, Alcolea-Medina A, Beckett A, Charalampous T, da Silva Filipe A, Glaysher S, Khan T , Kulasegaran Shylini R et al (2021) SARS-CoV-2 lineage B.1.1.7 is associated with greater disease severity among hospitalised women but not men: multicentre cohort study. BMJ Open Respiratory Research, 8(1), e001029-e001029.
Boshier FAT, Pang J, Penner J, Parker M, Alders N, Bamford A, Grandjean L, Grunewald S, Hatcher J, Best T , Dalton C et al (2021) Evolution of viral variants in remdesivir treated and untreated SARS-CoV-2 infected paediatrics patients.. J Med Virol.
Abatan B, Agboghoroma O, Akemoke F, Antonio M, Awokola B, Bittaye M, Bojang A, Bojang K, Brotherton H, Cerami C , Clarke E et al (2021) Intense and mild first epidemic wave of Coronavirus disease, the Gambia. Emerging Infectious Diseases, 27(8), 2064-2072.
Lindsey BB, Villabona-Arenas CJ, Campbell F, Keeley AJ, Parker MD, Shah DR, Parsons H, Zhang P, Kakkar N, Gallis M , Foulkes BH et al (2021) Characterising within-hospital SARS-CoV-2 transmission events: a retrospective analysis integrating epidemiological and viral genomic data from a UK tertiary care setting across two pandemic waves.
Drake TM, Riad AM, Fairfield CJ, Egan C, Knight SR, Pius R, Hardwick HE, Norman L, Shaw CA, McLean KA , Thompson AAR et al (2021) Characterisation of in-hospital complications associated with COVID-19 using the ISARIC WHO Clinical Characterisation Protocol UK: a prospective, multicentre cohort study. The Lancet, 398(10296), 223-237. View this article in WRRO
Colton H, Greenfield DM, Snowden JA, Miller PDE, Morley NJ, Wright J, Darton TC, Evans CM & de Silva TI (2021) Long-term survivors following autologous haematopoetic stem cell transplantation have significant defects in their humoral immunity against vaccine preventable diseases, years on from transplant. Vaccine, 39(34), 4778-4783.
Stirrup O, Hughes J, Parker M, Partridge DG, Shepherd JG, Blackstone J, Coll F, Keeley A, Lindsey BB, Marek A , Peters C et al (2021) Rapid feedback on hospital onset SARS-CoV-2 infections combining epidemiological and sequencing data. eLife, 10.
Russell CD, Fairfield CJ, Drake TM, Turtle L, Seaton RA, Wootton DG, Sigfrid L, Harrison EM, Docherty AB, de Silva TI , Egan C et al (2021) Co-infections, secondary infections, and antimicrobial use in patients hospitalised with COVID-19 during the first pandemic wave from the ISARIC WHO CCP-UK study : a multicentre, prospective cohort study. The Lancet Microbe.
Peacock T, Sheppard C, Brown J, Goonawardane N, Zhou J, Whiteley M, de Silva T, Barclay W & PHE Virology Consortium (2021) The SARS-CoV-2 variants associated with infections in India, B.1.617, show enhanced spike cleavage by furin.
Leary S, Gaudieri S, Parker MD, Chopra A, James I, Pakala S, Alves E, John M, Lindsey BB, Keeley AJ , Rowland-Jones SL et al (2021) Generation of a novel SARS-CoV-2 sub-genomic RNA due to the R203K/G204R variant in nucleocapsid.. bioRxiv.
de Silva T, Liu G, B Lindsey B, Dong D, Shah D, J. Mentzer A, Angyal A, Brown R, D. Parker M, Ying Z , Yao X et al (2021) The impact of viral mutations on recognition by SARS-CoV-2 specific T-cells.
Ogbe A, Kronsteiner B, Skelly DT, Pace M, Brown A, Adland E, Adair K, Akhter HD, Ali M, Ali SE , Angyal A et al (2021) T cell assays differentiate clinical and subclinical SARS-CoV-2 infections from cross-reactive antiviral responses. Nature Communications, 12(1).
ten-Caten F, Gonzalez-Dias P, Castro Í, Ogava RLT, Giddaluru J, Silva JCS, Martins F, Gonçalves ANA, Costa-Martins AG, Araujo JD , Viegas AC et al (2021) In-depth analysis of laboratory parameters reveals the interplay between sex, age, and systemic inflammation in individuals with COVID-19. International Journal of Infectious Diseases, 105, 579-587.
Angyal A, Longet S, Moore S, Payne R, Harding A, Tipton T, Rongkard P, Ali M, Hering L, Meardon N , Austin J et al (2021) T-Cell and Antibody Responses to First BNT162b2 Vaccine Dose in Previously SARS-CoV-2-Infected and Infection-Naive UK Healthcare Workers: A Multicentre, Prospective, Observational Cohort Study.
Parker MD, Lindsey BB, Leary S, Gaudieri S, Chopra A, Wyles M, Angyal A, Green LR, Parsons P, Tucker RM , Brown R et al (2021) Subgenomic RNA identification in SARS-CoV-2 genomic sequencing data. Genome Research. View this article in WRRO
Williams EJ, Mair L, de Silva TI, Green DJ, House P, Cawthron K, Gillies C, Wigfull J, Parsons H & Partridge DG (2021) Evaluation of procalcitonin as a contribution to antimicrobial stewardship in SARS-CoV-2 infection: a retrospective cohort study. Journal of Hospital Infection.
Leary S, Gaudieri S, Parker MD, Chopra A, James I, Pakala S, Alves E, John M, Lindsey BB, Keeley AJ , Rowland-Jones SL et al (2021) Generation of a novel sars-cov-2 sub-genomic rna due to the r203k/ g204r variant in nucleocapsid: Homologous recombination has potential to change sars-cov-2 at both protein and rna level. Pathogens and Immunity, 6(2), 27-49.
Weissman D, Alameh M-G, de Silva T, Collini P, Hornsby H, Brown R, LaBranche CC, Edwards RJ, Sutherland L, Santra S , Mansouri K et al (2020) D614G Spike mutation increases SARS CoV-2 susceptibility to neutralization. Cell Host & Microbe.
Remmington A, Haywood S, Edgar J, Green LR, de Silva T & Turner CE (2020) Cryptic prophages within a Streptococcus pyogenes genotype emm4 lineage. Microbial Genomics.
Boshier FAT, Pang J, Penner J, Hughes J, Parker M, Shepherd J, Alders N, Bamford A, Grandjean L, Grunewald S , Hatcher J et al (2020) Remdesivir induced viral RNA and subgenomic RNA suppression, and evolution of viral variants in SARS-CoV-2 infected patients.
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Minter A, Hoschler K, Jagne YJ, Sallah H, Armitage E, Lindsey B, Hay JA, Riley S, de Silva TI & Kucharski A (2020) Estimation of seasonal influenza attack rates and antibody dynamics in children using cross-sectional serological data. The Journal of Infectious Diseases. View this article in WRRO
Korber B, Fischer WM, Gnanakaran S, Yoon H, Theiler J, Abfalterer W, Hengartner N, Giorgi EE, Bhattacharya T, Foley B , Hastie KM et al (2020) Tracking changes in SARS-CoV-2 Spike: evidence that D614G increases infectivity of the COVID-19 virus. Cell. View this article in WRRO
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Keeley AJ, Evans CM & de Silva TI (2020) Asymptomatic SARS-CoV-2 infection: the tip or the iceberg?. Thorax, 75(8), 621-622.
Colton H, Ankcorn M, Yavuz M, Tovey L, Cope A, Raza M, Keeley AJ, State A, Poller B, Parker M , de Silva TI et al (2020) Improved sensitivity using a dual target, E and RdRp assay for the diagnosis of SARS-CoV-2 infection : experience at a large NHS Foundation Trust in the UK. Journal of Infection.
Jarju S, Greenhalgh K, Wathuo M, Banda M, Camara B, Mendy S, Sowe G, Dahaba PO, Jammeh L, Bajinka Y , Sanneh P et al (2020) Viral Etiology, Clinical Features and Antibiotic Use in Children <5 Years of Age in the Gambia Presenting With Influenza-like Illness. Pediatric Infectious Disease Journal, Publish Ahead of Print.
Keeley AJ, Evans C, Colton H, Ankcorn M, Cope A, State A, Bennett T, Giri P, de Silva TI & Raza M (2020) Roll-out of SARS-CoV-2 testing for healthcare workers at a large NHS foundation trust in the United Kingdom, March 2020. Eurosurveillance, 25(14). View this article in WRRO
Mackenzie GA, Vilane A, Salaudeen R, Hogerwerf L, van den Brink S, Wijsman LA, Overduin P, Janssens TKS, de Silva TI, van der Sande MAB , Kampmann B et al (2019) Respiratory syncytial, parainfluenza and influenza virus infection in young children with acute lower respiratory infection in rural Gambia. Scientific Reports, 9(1).
Armitage EP, Senghore E, Darboe S, Barry M, Camara J, Bah S, Marks M, Cerami C, Roca A, Antonio M , Turner CE et al (2019) High burden and seasonal variation of paediatric scabies and pyoderma prevalence in the Gambia : a cross-sectional study. PLOS Neglected Tropical Diseases, 13(10). View this article in WRRO
Darboe S, Okomo U, Muhammad A-K, Ceesay B, Jallow M, Usuf E, Tweed S, Akpalu E, Kwambana-Adams B, Kariuki S , Antonio M et al (2019) Community-acquired invasive bacterial disease in urban Gambia, 2005–2015: A hospital-based surveillance. Clinical Infectious Diseases, 69(Supplement_2), S105-S113. View this article in WRRO
de Lima DS, Cardozo LE, Maracaja-Coutinho V, Suhrbier A, Mane K, Jeffries D, Silveira ELV, Amaral PP, Rappuoli R, de Silva TI & Nakaya HI (2019) Long noncoding RNAs are involved in multiple immunological pathways in response to vaccination. Proceedings of the National Academy of Sciences, 116(34), 17121-17126. View this article in WRRO
Lindsey BB, Jagne YJ, Armitage EP, Singanayagam A, Sallah HJ, Drammeh S, Senghore E, Mohammed NI, Jeffries D, Höschler K , Tregoning JS et al (2019) Effect of a Russian-backbone live-attenuated influenza vaccine with an updated pandemic H1N1 strain on shedding and immunogenicity among children in The Gambia : an open-label, observational, phase 4 study. The Lancet Respiratory Medicine. View this article in WRRO
Darboe S, Dobreniecki S, Jarju S, Jallow M, Mohammed NI, Wathuo M, Ceesay B, Tweed S, Basu Roy R, Okomo U , Kwambana-Adams B et al (2019) Prevalence of Panton-Valentine Leukocidin (PVL) and antimicrobial resistance in community-acquired clinical Staphylococcus aureus in an urban Gambian hospital : a 11-year period retrospective pilot study. Frontiers in Cellular and Infection Microbiology, 9. View this article in WRRO
McTavish S, Snow S, Cook E, Pichon B, Coleman S, Coombs G, Pang S, Arias C, Diaz L, Boldock E , Davies S et al (2019) Genomic and epidemiological evidence of a dominant Panton-Valentine leucocidin-positive Methicillin Resistant Staphylococcus aureus lineage in Sri Lanka and presence among isolates from the United Kingdom and Australia. Frontiers in Cellular and Infection Microbiology, 9. View this article in WRRO
Miller PDE, de Silva TI, Leonard H, Anthias C, Hoschler K, Goddard K, Peggs K, Madrigal A & Snowden JA (2019) A comparison of viral microneutralization and haemagglutination inhibition assays as measures of seasonal inactivated influenza vaccine immunogenicity in the first year after reduced intensity conditioning, lymphocyte depleted allogeneic haematopoietic stem cell transplant. Vaccine, 37(3), 452-457. View this article in WRRO
Lindsey BB, Armitage EP, Kampmann B & de Silva TI (2018) The efficacy, effectiveness, and immunogenicity of influenza vaccines in Africa: a systematic review. The Lancet Infectious Diseases. View this article in WRRO
James KL, de Silva TI, Brown K, Whittle H, Taylor S, McVean G, Esbjörnsson J & Rowland-Jones SL (2018) Low-Bias RNA Sequencing of the HIV-2 Genome from Blood Plasma. Journal of Virology, 93(1). View this article in WRRO
Lindsey B, Jankey J, Armitage E, Jeffries D, Mohammed N, Drammeh S, Senghore E, Sallah H, Tregoning J, Hoschler K , Dong T et al (2018) 1663. Marked Improvement in Pandemic H1N1 Component Shedding and Immunogenicity in 2017–2018 Russian-Backbone Live Attenuated Influenza Vaccine (LAIV) in Gambian Children. Open Forum Infectious Diseases, 5(suppl_1), S50-S50.
Miller PDE, Forster AS, de Silva TI, Leonard H, Anthias C, Mayhew M, Klammer M, Paskar S, Hurst E, Peggs K , Madrigal A et al (2018) Sociodemographic and psychological determinants of influenza vaccine intention among recipients of autologous and allogeneic haematopoietic stem cell transplant: a cross-sectional survey of UK transplant recipients using a modified health belief model. BMJ Open, 8(8), e021222-e021222. View this article in WRRO
Knight GM, Clarkson M & de Silva TI (2018) Potential impact of influenza vaccine roll-out on antibiotic use in Africa.. Journal of Antimicrobial Chemotherapy, 73(8), 2197-2200. View this article in WRRO
de Silva T, Leligdowicz A, Carlson J, Garcia-Knight M, Onyango C, Miller N, Yindom LM, Hue S, Jaye A, Dong T , Cotten M et al (2018) HLA-associated polymorphisms in the HIV-2 capsid highlight key differences between HIV-1 and HIV-2 immune adaptation. AIDS, 6, 704-709. View this article in WRRO
Armitage EP, Camara J, Bah S, Forster AS, Clarke E, Kampmann B & de Silva TI (2018) Acceptability of intranasal live attenuated influenza vaccine, influenza knowledge and vaccine intent in The Gambia. Vaccine, 36(13), 1772-1780. View this article in WRRO
Miller PDE, de Silva TI, Skinner R, Gilleece M, Peniket A, Hamblin A, Greenfield D, Anthias C, Peggs K, Madrigal A & Snowden JA (2017) Erratum: Routine vaccination practice after adult and paediatric allogeneic haematopoietic stem cell transplant: a survey of UK NHS programmes. Bone Marrow Transplantation, 52(7), 1082-1082.
de Silva TI, Gould V, Mohammed NI, Cope A, Meijer A, Zutt I, Reimerink J, Kampmann B, Hoschler K, Zambon M & Tregoning JS (2017) Comparison of mucosal lining fluid sampling methods and influenza-specific IgA detection assays for use in human studies of influenza immunity. Journal of Immunological Methods.
de Silva TI & Kampmann B (2017) Value of immunogenicity studies of influenza vaccine in resource-limited settings. The Lancet Global Health, 5(3), e274-e274. View this article in WRRO
Miller PD, de Silva TI, Skinner R, Gilleece M, Peniket A, Hamblin A, Greenfield D, Anthias C, Peggs K, Madrigal A & Snowden JA (2017) Routine vaccination practice after adult and paediatric allogeneic haematopoietic stem cell transplant: a survey of UK NHS programmes.. Bone Marrow Transplant. View this article in WRRO
Parkash V, Mudhar HS, Wagner BE, Raoult D, Batty R, Lepidi H, Burke J, Collini P & de Silva T (2017) Bilateral Ocular Myositis Associated with Whipple's Disease. Ocular Oncology and Pathology, 3(1), 17-21. View this article in WRRO
Garcia-Knight MA, Slyker J, Payne BL, Pond SLK, de Silva TI, Chohan B, Khasimwa B, Mbori-Ngacha D, John-Stewart G, Rowland-Jones SL & Esbjörnsson J (2016) Viral Evolution and Cytotoxic T Cell Restricted Selection in Acute Infant HIV-1 Infection. Scientific Reports, 6. View this article in WRRO
Fryer HR, Van Tienen C, Van Der Loeff MS, Aaby P, Da Silva ZJ, Whittle H, Rowland-Jones SL & de Silva TI (2015) Predicting the extinction of HIV-2 in rural Guinea-Bissau. AIDS, 29(18), 2479-2486. View this article in WRRO
de Silva TI, Debroy Kidambi A, Green ST, Mahadeva U, Mcgregor AC, Levy M & Hardcastle N (2015) Cutaneous leishmaniasis acquired during a brief visit to Cyprus. Journal of Infection, 70(3), 314-316.
Yindom L-M, de Silva TI & Rowland-Jones SL (2015) Identification of a novel three-domain KIR allele:KIR3DL1*087using high-resolution molecular techniques. Tissue Antigens, 85(2), 153-154.
Yindom L-M, de Silva TI & Rowland-Jones SL (2015) KIR3DL1*0250102: a novel three-domain KIR subtype identified in West Africa. Tissue Antigens, 85(2), 151-152.
Yindom L-M, de Silva TI & Rowland-Jones SL (2015) KIR3DL1*0250103: a novel three-domain KIR allele isolated in West African samples. Tissue Antigens, 86(2), 150-151.
Yindom L-M, James K, de Silva TI & Rowland-Jones SL (2015) KIR3DL1*0040102- a novel three-domain KIR subtype isolated from donors of African descent. Tissue Antigens, 86(3), 220-221.
Yindom L-M, de Silva TI & Rowland-Jones SL (2015) Full-length sequence ofKIR3DL1*0310102detected in DNA samples from West Africa. Tissue Antigens, 86(4), 312-313.
Yindom L-M, James K, de Silva TI & Rowland-Jones SL (2015) A novelKIR3DL1*0150103subtype identified in West Africa. Tissue Antigens, 86(1), 70-71.
Yindom L-M, de Silva TI & Rowland-Jones SL (2014) Description of a novelKIR3DL1*0150211allele isolated using molecular techniques. Tissue Antigens, 84(6), 596-597.
Yindom L-M, James K, de Silva TI & Rowland-Jones SL (2014) Isolation of full-length genomic sequences of theKIR3DL1*0040103allele from African donors using sequence-based techniques. Tissue Antigens, 84(6), 594-595.
Yindom L-M, Wong G, de Silva TI & Rowland-Jones SL (2014) Complete genomic sequence ofKIR3DL1*0150102. Tissue Antigens, 84(6), 595-596.
Yindom L-M, Wong G, de Silva TI & Rowland-Jones SL (2014) A new variant of killer-cell immunoglobulin-like receptorKIR3DL1*03101isolated using sequence-based techniques. Tissue Antigens, 84(5), 521-522.
Yindom L-M, James K, de Silva TI & Rowland-Jones SL (2014) Genomic full length sequence of a novel killer-cell immunoglobulin-like receptor,KIR3DL1*0010103identified by sequencing. Tissue Antigens, 84(5), 520-521.
Uchtenhagen H, Schiffner T, Bowles E, Heyndrickx L, LaBranche C, Applequist SE, Jansson M, De Silva T, Back JW, Achour A , Scarlatti G et al (2014) Boosting of HIV-1 Neutralizing Antibody Responses by a Distally Related Retroviral Envelope Protein. The Journal of Immunology, 192(12), 5802-5812.
de Silva TI, Green ST, Cole J, Stone BJ, Dockrell DH & Vedio AB (2014) Successful use of Fendrix in HIV-infected non-responders to standard hepatitis B vaccines. Journal of Infection, 68(4), 397-399.
Yindom L-M, James K, de Silva TI & Rowland-Jones SL (2014) Full-lengthKIR3DL1*022detected in an African donor. Tissue Antigens, 84(4), 427-429.
Yindom L-M, de Silva TI & Rowland-Jones SL (2014) A novelKIR3DL1*0200102allele isolated from a West African donor by sequence-based typing. Tissue Antigens, 83(4), 305-306.
Yindom L-M, de Silva TI & Rowland-Jones SL (2014) Full-length sequence ofKIR3DL1*01501allele found in Sub-Saharan Africa by long-range sequencing. Tissue Antigens, 83(2), 126-127.
de Silva T, Peng Y, Leligdowicz A, Zaidi I, Li L, Griffin H, Blais M-E, Vincent T, Saraiva M, Yindom L-M , van Tienen C et al (2013) The role of CD8+ T-cell responses in the pathogenesis of HIV-2, a naturally contained human retroviral infection. Journal of Infection, 67(4), 344-344.
de Silva TI, Peng Y, Leligdowicz A, Zaidi I, Li L, Griffin H, Blais M-E, Vincent T, Saraiva M, Yindom L-M , van Tienen C et al (2013) Correlates of T-cell–mediated viral control and phenotype of CD8+ T cells in HIV-2, a naturally contained human retroviral infection. Blood, 121(21), 4330-4339.
de Silva TI, van Tienen C, Onyango C, Jabang A, Vincent T, Loeff MFSVD, Coutinho RA, Jaye A, Rowland-Jones S, Whittle H , Cotten M et al (2013) Population dynamics of HIV-2 in rural West Africa. AIDS, 27(1), 125-134.
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Daigneault M, De Silva TI, Bewley MA, Preston JA, Marriott HM, Mitchell AM, Mitchell TJ, Read RC, Whyte MKB & Dockrell DH (2012) Monocytes Regulate the Mechanism of T-cell Death by Inducing Fas-Mediated Apoptosis during Bacterial Infection. PLoS Pathogens, 8(7). View this article in WRRO
Zaidi I, Peterson K, Jeffries D, Whittle H, de Silva T, Rowland-Jones S, Jaye A & de Jong BC (2012) Immune Reconstitution Inflammatory Syndrome and the Influence of T Regulatory Cells: A Cohort Study in the Gambia. PLoS ONE, 7(6). View this article in WRRO
van Tienen C, de Silva TI, Alcantara LCJ, Onyango CO, Jarju S, Gonçalves N, Vincent T, Aaby P, Whittle H, Schim van der Loeff M & Cotten M (2012) Molecular Epidemiology of Endemic Human T-Lymphotropic Virus Type 1 in a Rural Community in Guinea-Bissau. PLoS Neglected Tropical Diseases, 6(6). View this article in WRRO
van Tienen C, McConkey SJ, de Silva TI, Cotten M, Kaye S, Sarge-Njie R, da Costa C, Gonçalves N, Parker J, Vincent T , Jaye A et al (2012) Maternal Proviral Load and Vertical Transmission of Human T Cell Lymphotropic Virus Type 1 in Guinea-Bissau. AIDS Research and Human Retroviruses, 28(6), 584-590.
Sabbah S, Jagne YJ, Zuo J, de Silva T, Ahasan MM, Brander C, Rowland-Jones S, Flanagan KL & Hislop AD (2012) T-cell immunity to Kaposi sarcoma–associated herpesvirus: recognition of primary effusion lymphoma by LANA-specific CD4+ T cells. Blood, 119(9), 2083-2092.
de Silva TI, Aasa-Chapman M, Cotten M, Hue S, Robinson J, Bibollet-Ruche F, Sarge-Njie R, Berry N, Jaye A, Aaby P , Whittle H et al (2012) Potent Autologous and Heterologous Neutralizing Antibody Responses Occur in HIV-2 Infection across a Broad Range of Infection Outcomes. Journal of Virology, 86(2), 930-946.
Stewart B, Jobarteh ML, Sarge-Njie R, Alabi A, de Silva T, Peterson K, Peterson I, Whittle H, Rowland-Jones S, Jaye A , Cotten M et al (2011) Emergence of HBV resistance to lamivudine (3TC) in HIV/HBV co-infected patients in The Gambia, West Africa. BMC Research Notes, 4. View this article in WRRO
van Tienen C, van der Loeff MS, Peterson I, Cotten M, Andersson S, Holmgren B, Vincent T, de Silva T, Rowland-Jones S, Aaby P & Whittle H (2011) HTLV-1 and HIV-2 Infection Are Associated with Increased Mortality in a Rural West African Community. PLoS ONE, 6(12). View this article in WRRO
Peterson I, Togun O, de Silva T, Oko F, Rowland-Jones S, Jaye A & Peterson K (2011) Mortality and immunovirological outcomes on antiretroviral therapy in HIV-1 and HIV-2-infected individuals in the Gambia. AIDS, 25(17), 2167-2175.
Peterson K, Jallow S, Rowland-Jones SL & de Silva TI (2011) Antiretroviral Therapy for HIV-2 Infection: Recommendations for Management in Low-Resource Settings. AIDS Research and Treatment, 2011. View this article in WRRO
van Tienen C, de Silva TI, Alcantara LC, van der Loeff MS, Vincent T, Gonçalves N, Coutinho RA, Aaby P, Whittle H & Cotten M (2011) Molecular epidemiology of endemic Human T-Lymphotropic virus 1 (HTLV-1) in a community in rural Guinea-Bissau. Retrovirology, 8(S1).
van Tienen C, McConkey SJ, de Silva TI, Cotten M, Kaye S, Sarge-Njie R, da Costa C, Gonçalves N, Parker J, Vincent T , Jaye A et al (2011) Maternal proviral load and vertical transmission of Human T cell Lymphotropic Virus type 1 in Guinea-Bissau. Retrovirology, 8(S1).
de Silva T & Weiss RA (2010) HIV-2 goes global: An unaddressed issue in Indian anti-retroviral programmes. Indian Journal of Medical Research, 132(12), 660-662.
de Silva TI, Turner R, Hué S, Trikha R, van Tienen C, Onyango C, Jaye A, Foley B, Whittle H, Rowland-Jones SL & Cotten M (2010) HIV-1 subtype distribution in the Gambia and the significant presence of CRF49_cpx, a novel circulating recombinant form. Retrovirology, 7(1). View this article in WRRO
Onyango CO, Leligdowicz A, Yokoyama M, Sato H, Song H, Nakayama EE, Shioda T, de Silva T, Townend J, Jaye A , Whittle H et al (2010) HIV-2 capsids distinguish high and low virus load patients in a West African community cohort. Vaccine, 28, B60-B67.
de Silva TI, van Tienen C, Rowland-Jones SL & Cotten M (2010) Dual infection with HIV-1 and HIV-2: double trouble or destructive interference?. HIV Therapy, 4(3), 305-323.
Jallow S, Vincent T, Leligdowicz A, De Silva T, Van Tienen C, Alabi A, Sarge‐Njie R, Aaby P, Corrah T, Whittle H , Jaye A et al (2009) Presence of a Multidrug‐Resistance Mutation in an HIV‐2 Variant Infecting a Treatment‐Naive Individual in Caio, Guinea Bissau. Clinical Infectious Diseases, 48(12), 1790-1793.
de Silva TI, Cotten M & Rowland-Jones SL (2008) HIV-2: the forgotten AIDS virus. Trends in Microbiology, 16(12), 588-595.
Stone B, Patel TG, De Silva TI, Green ST & Chapman ALN (2008) Successful treatment of actinomyces brain abscesses using once daily parenteral ceftriaxone in an outpatient setting: a case series. Journal of Infection, 57(5), 426-427.
Rowland-Jones S & de Silva T (2008) Resisting Immune Exhaustion in HIV-1 Infection. PLoS Medicine, 5(5), 721-724. View this article in WRRO
de Silva T, Kudesia G, Joall A, Whittaker D, Ryan C & Davies S (2007) The significance of low-positive MOTA scoresin the BD-ProbeTec-Strand Displacement Amplification test for the detection of Neisseria gonorrhoeae. Journal of Infection, 55(3), e67-e68.
de Silva TI, Post FA, Griffin MD & Dockrell DH (2007) HIV-1 Infection and the Kidney: An Evolving Challenge in HIV Medicine. Mayo Clinic Proceedings, 82(9), 1103-1116. View this article in WRRO
de Silva T, Thickett K & Winstanley T (2007) Screening for Extended-Spectrum Beta Lactamase producing gram-negative organisms: can the sensitivity and specificity of current guidance be improved?. Journal of Infection, 55(3), e58-e58.
de Silva TI, Cope A, Goepel J & Greig JM (2007) The use of adjuvant granulocyte-macrophage colony-stimulating factor in HIV-related disseminated atypical mycobacterial infection. Journal of Infection, 54(4), e207-e210.
de Silva T, Kudesia G, Joall A, Whittaker D, Davies S & Ryan C (2006) Significance of Low Positive Scores Obtained with a Method Other than Acceleration in the BDProbeTec-Strand Displacement Amplification Test for Detection of Neisseria gonorrhoeae. Journal of Clinical Microbiology, 44(12), 4628-4629.
Raychaudhuri M, de Silva T, Connor S & Poulton M (2006) Haemorrhagic acute disseminated encephalomyelitis: an unusual case of blindness in an HIV-infected patient. International Journal of STD & AIDS, 17(7), 495-497.
Chapman AL, Kudesia G, McKendrick MW & de Silva TI (2006) WITHDRAWN: Ongoing queries: Interpretation of serology in asymptomatic or atypical chronic Q fever. Journal of Infection.
Evans CM, Mudhar H, Rennie I, Green ST & de Silva TI (2006) WITHDRAWN: Spontaneous resolution of endophthalmitis due to nocardia species. Journal of Infection.
de Silva T, Chapman A, Kudesia G & McKendrick M (2006) Ongoing queries: Interpretation of serology in asymptomatic or atypical chronic Q fever. Journal of Infection, 52(4), e113-e116.
de Silva T (2005) Ventriculitis and hydrocephalus: an unusual presentation of toxoplasmosis in an adult with human immunodeficiency virus. Journal of Neurology, Neurosurgery & Psychiatry, 76(8), 1074-1074.
de Silva T (2005) HIV infection associated with Strongyloides stercoralis colitis resulting in Streptococcus bovis bacteraemia and meningitis. Sexually Transmitted Infections, 81(3), 276-277.
Jarju S, Senghore E, Brotherton H, Saidykhan A, Jallow S, Krubally E, Sinjanka E, Ndene MN, Bajo F, Sanyang MM , Saidy B et al () Circulation of respiratory viruses during the COVID-19 pandemic in The Gambia. Gates Open Research, 6, 148-148.
Armitage EP, Keeley AJ, de Crombrugghe G, Senghore E, Camara FE, Jammeh M, Bittaye A, Ceesay H, Ceesay I, Samateh B , Manneh M et al () Streptococcus pyogenes carriage acquisition, persistence and transmission dynamics within households in The Gambia (SpyCATS): protocol for a longitudinal household cohort study. Wellcome Open Research, 8, 41-41.
Carabelli AM, Peacock TP, Thorne LG, Harvey WT, Hughes J, de Silva TI, Peacock SJ, Barclay WS, de Silva TI, Towers GJ & Robertson DL () SARS-CoV-2 variant biology: immune escape, transmission and fitness. Nature Reviews Microbiology.
Bah SY, Keeley AJ, Armitage EP, Khalid H, Chaudhuri RR, Senghore E, Manneh J, Tilley L, Marks M, Darboe S , Sesay AK et al () Genomic Characterization of Skin and Soft Tissue Streptococcus pyogenes Isolates from a Low-Income and a High-Income Setting. mSphere.
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Keeley AJ, Carducci M, Massai L, Pizza M, de Silva TI, G. Moriel D & Rossi O () Development and Characterisation of a Four-Plex Assay to Measure Streptococcus pyogenes Antigen-Specific IgG in Human Sera. Methods and Protocols, 5(4), 55-55.
Shankar S, Beckett J, Tipton T, Ogbe A, Kasanyinga M, Dold C, Lumley S, Dengu F, Rompianesi G, Elgilani F , Longet S et al () SARS-CoV-2-Specific T Cell Responses Are Not Associated with Protection against Reinfection in Hemodialysis Patients. Journal of the American Society of Nephrology, ASN.2021121587-ASN.2021121587.
Wright DW, Harvey WT, Hughes J, Cox M, Peacock TP, Colquhoun R, Jackson B, Orton R, Nielsen M, Hsu NS , Harrison EM et al () Tracking SARS-CoV-2 Mutations & Variants Through the COG-UK-Mutation Explorer. Virus Evolution.
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De Silva TI & Malavige GN () Expansion of SARS-CoV-2 sequencing capacity globally is vital for future control of the COVID-19 pandemic. Sri Lanka Journal of Medicine, 30(1), 4-4.
Peto L, Rodger G, Carter DP, Osman KL, Yavuz M, Johnson K, Raza M, Parker MD, Wyles MD, Andersson M , Justice A et al () Diagnosis of SARS-CoV-2 infection with LamPORE, a high-throughput platform combining loop-mediated isothermal amplification and nanopore sequencing. Journal of Clinical Microbiology.
Jabang S, Erhart A, Darboe S, Baldeh A-K, Delforge V, Watson G, Foster-Nyarko E, Salaudeen R, Lawal B, Mackenzie G , Botteaux A et al () Molecular Epidemiology of Group A Streptococcus Infections in The Gambia. Vaccines, 9(2), 124-124.
Peng Y, Mentzer AJ, Liu G, Yao X, Yin Z, Dong D, Dejnirattisai W, Rostron T, Supasa P, Liu C , Lopez-Camacho C et al () Broad and strong memory CD4+ and CD8+ T cells induced by SARS-CoV-2 in UK convalescent COVID-19 patients.
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Lindsey B, Jagne YJ, Armitage E, Singanayagam A, Sallah H, Drammeh S, Senghore E, Mohammed N, Jeffries D, Höschler K , Tregoning J et al () The impact of an updated pandemic H1N1 strain on shedding and immunogenicity to Russian-backbone live attenuated influenza vaccine among children in The Gambia: an open-label, observational, phase 4 study.. The Lancet Respiratory Medicine.
Rowland-Jones S & de Silva T () Correction: Resisting Immune Exhaustion in HIV-1 Infection. PLoS Medicine, 5(6), e134-e134.
de Silva T, Evans C, Mudhar HS, Rennie I & Green ST () Isolated endogenous endophthalmitis secondary to Nocardia spp in an immunocompetent adult. Journal of Clinical Pathology, 59(11), 1226-1226.
Parker MD, Lindsey BB, Leary S, Gaudieri S, Chopra A, Wyles M, Angyal A, Green LR, Parsons P, Tucker RM , Brown R et al () periscope: sub-genomic RNA identification in SARS-CoV-2 ARTIC Network Nanopore Sequencing Data.
Williams EJ, Mair L, de Silva TI, Green DJ, House P, Cawthron K, Gillies C, Wigfull J, Parsons H & Partridge DG () Routine measurement of serum procalcitonin allows antibiotics to be safely withheld in patients admitted to hospital with SARS-CoV-2 infection.. View this article in WRRO
Goldhill DH, Lindsey B, Kugathasan R, Garza ZF, Jagne YJ, Sallah HJ, Goderski G, van Tol S, Höschler K, Meijer A , Barclay WS et al () The Consequences of Egg Adaptation in the H3N2 Component to the Immunogenicity of Live Attenuated Influenza Vaccine.
Lindsey BB, Höschler K & de Silva TI () Complexities in predicting the immunogenicity of live attenuated influenza vaccines. Clinical Infectious Diseases. View this article in WRRO
Jeewandara C, Jayathilaka D, Ranasinghe D, Hsu NS, Ariyaratne D, Jayadas TT, Panambara Arachchige DM, Lindsey BB, Gomes L, Parker MD , Wijewickrama A et al () Genomic and Epidemiological Analysis of SARS-CoV-2 Viruses in Sri Lanka. Frontiers in Microbiology, 12.
Tettamanti FAT, Venturini C, Stirrup OT, Guerra-Assuncao JA, Alcolea-Medina A, Becket AH, Byott M, Charalampous T, da Silva Filipe A, Frampton D , Glaysher S et al () The Alpha Variant B.1.1.7 Was Not Associated With Excess Healthcare Acquired COVID-19 Infection in a Multi-Centre UK Hospital Study.
Payne RP, Longet S, Austin JA, Skelly D, Dejnirattisai W, Adele S, Meardon N, Faustini S, Al-Taei S, Moore S , Tipton T et al () Sustained T Cell Immunity, Protection and Boosting Using Extended Dosing Intervals of BNT162b2 mRNA Vaccine.
Shankar S, Beckett J, Tipton T, Ogbe A, Kasanyinga M, Dold C, Lumley S, Dengu F, Rompianesi G, Elgilani F , Longet S et al () Poor Antibody Responses to SARS-CoV-2 Infection or Vaccination Are Associated With High Re-Infection Rates in Haemodialysis and Renal Transplant Patients.
Kearns P, Siebert S, willicombe M, Gaskell C, Kirkham A, Pirrie S, Bowden S, Magwaro S, Hughes A, Lim Z , Dimitriadis S et al () Examining the Immunological Effects of COVID-19 Vaccination in Patients with Conditions Potentially Leading to Diminished Immune Response Capacity – The OCTAVE Trial.
Russell CD, Fairfield CJ, Drake TM, Turtle L, Seaton RA, Wootton DG, Sigfrid L, Harrison EM, Docherty A, de Silva TI , Egan C et al () Co-Infections, Secondary Infections, and Antimicrobial Usage in Hospitalised Patients with COVID-19 from the ISARIC WHO CCP-UK Study: A Prospective, Multicentre Cohort Study.
Costa-Martins AG, Mane K, Lindsey BB, Ogava RLT, Castro Í, Jagne YJ, Sallah H, Armitage E, Ahadzie B, Ellis-Watson R , Tregoning JS et al () Pre-Existing Upregulation of Interferon Pathways in the Nasopharynx Impacts Viral Shedding Following Live Attenuated Influenza Vaccine Challenge in Children.
Asante I, Nienyun Hsu S, Boatemaa L, Kwash L, Aduesi-Poku M, Odom JK, Awuku-Larbi Y, Foulkes BH, Oliver-Commey J, Asiedu E , Parker M et al () Genomic Surveillance of SARS-CoV-2 in Ghana: Leveraging an Integrated National Influenza and SARS-CoV-2 Platform.
Moore S, Kronsteiner B, Longet S, Adele S, Deeks A, Liu C, Dejnirattisai W, Silva Reyes L, Meardon N, Faustini S , Al-Taei S et al () Evolution of Long-Term Hybrid Immunity in Healthcare Workers after Different Covid-19 Vaccination Regimens: A Longitudinal Observational Cohort Study.
Williams DM, Hornsby H, Shehata OM, Brown R, Gallis M, Meardon N, Newman TAH, Plowright M, Zafred D, Shun-Shion ASM , Hodder AJ et al () Characterisation of SARS-CoV-2 Membrane Protein-Specific Antibodies as an Additional Serological Target Following COVID-19 Infections Identified Through a High Content Microscopy-Based Platform.

Chapters

Abrahamian FM, Aldape MJ, Aldasoro E, Allen UD, Al-Sum H, Anadkat MJ, Anders K, Angelakis E, Angus BJ, Antoniadou A , Arena F et al (2017) List of Contributors, Infectious Diseases (pp. xv-xxxvi). Elsevier
De Silva TI & Green ST (2017) Managing the Patient with Recurring Skin Infections, Infectious Diseases (pp. 133-135.e1). Elsevier
Moysi E, de Silva T & Rowland-Jones S (2012) Immune Mechanisms of Viral Control in HIV-2 Infection, Models of Protection Against HIV/SIV (pp. 293-315). Elsevier
Ball TB, Barré-Sinoussi F, Biasin M, Blankson JN, Broliden K, Buckheit RW, Card CM, Clerici M, de Silva T, Fellay J , Fowke KR et al (2012) Contributors, Models of Protection Against HIV/SIV (pp. xi-xii). Elsevier

Conference proceedings papers

Liew F, Talwar S, Efstathiou C, De Silva T, Dunachie S, Ho A, Fontanella S, Turtle L, Thwaites RS & Openshaw PJM (2022) Vaccination after recovery from COVID-19 affects nasal antibody levels. 03.02 - Airway cell biology and immunopathology
Miller PDE, de Silva T, Leonard H, Goddard K, Anthias C, Hoschler K, Peggs K, Madrigal A & Snowden JA (2017) Viral microneutralization assay to determine seasonal influenza vaccine immunogenicity in the first year post reduced intensity conditioning allogeneic HSCT. BONE MARROW TRANSPLANTATION, Vol. 52 (pp S269-S270)
Miller PDE, de Silva T, Skinner R, Gilleece M, Peniket A, Hamblin A, Greenfield D, Anthias C, Peggs K, Madrigal A , Snowden JA et al (2016) Routine Vaccination Programme (RVP) Practice after Adult and Paediatric Allogeneic Haematopoietic Stem Cell Transplant (HSCT): A British Society of Blood and Marrow Transplantation (BSBMT) Survey of UK NHS-Based Programmes. BONE MARROW TRANSPLANTATION, Vol. 51 (pp S400-S401)
Meiring J, De Silva T & Snowden J (2015) A study of adherence to a vaccination schedule following adult allogenic haematopoietic stem cell transplants in UK transplant centre. BONE MARROW TRANSPLANTATION, Vol. 50 (pp S203-S204)

Preprints

Neale I, Ali M, Kronsteiner B, Longet S, Abraham P, Deeks AS, Brown A, Moore SC, Stafford L, Dobson SL , Plowright M et al (2023) CD4+ and CD8+ T cell and antibody correlates of protection against Delta vaccine breakthrough infection: A nested case-control study within the PITCH study, Cold Spring Harbor Laboratory.
Hornsby H, Nicols AR, Longet S, Liu C, Tomic A, Angyal A, Kronsteiner B, Tyerman JK, Tipton T, Zhang P , Gallis Ramalho M et al (2023) Omicron BA.1/BA.2 infections in triple-vaccinated individuals enhance a diverse repertoire of mucosal and blood immune responses, Cold Spring Harbor Laboratory.
Bah SY, Kujabi MA, Darboe S, Kebbeh N, Kebbeh BFK, Kanteh A, Bojang R, Lawn JE, Kampmann B, Abdul Karim S , de Silva TI et al (2022) EARLY ACQUISITION AND CARRIAGE OF GENETICALLY DIVERSE MULTI-DRUG RESISTANT GRAM-NEGATIVE BACILLI IN HOSPITALISED SMALL VULNERABLE NEWBORNS IN THE GAMBIA, Cold Spring Harbor Laboratory.
Liew F, Talwar S, Cross A, Willett BJ, Scott S, Logan N, Siggins MK, Swieboda D, Sidhu JK, Efstathiou C , Moore SC et al (2022) Nasal IgA wanes 9 months after hospitalisation with COVID-19 and is not induced by subsequent vaccination, Cold Spring Harbor Laboratory.
Kanteh A, Jallow HS, Manneh J, Sanyang B, Kujabi MA, Ndure SL, Jarju S, Sey AP, Damilare DK, Bah Y , Sambou S et al (2022) Genomic epidemiology of SARS-CoV-2 infections in The Gambia, March 2020 to Jan 2022, Cold Spring Harbor Laboratory.
Armitage EP, Senghore E, Darboe S, Barry M, Camara J, Bah S, Marks M, Cerami C, Roca A, Antonio M , Turner CE et al (2019) High burden and seasonal variation of paediatric scabies and pyoderma prevalence in The Gambia: a cross-sectional study, Cold Spring Harbor Laboratory.
Jarju S, Senghore E, Brotherton H, Saidykhan A, Jallow S, Krubally E, Sinjanka E, Ndene MN, Bajo F, Sanyang M , Saidy B et al () Circulation of respiratory viruses during the COVID-19 pandemic in The Gambia, Cold Spring Harbor Laboratory.
Turtle L, Thorpe M, Drake TM, Swets M, Palmieri C, Russell CD, Ho A, Aston S, Wootton DG, Richter A , de Silva TI et al () Outcome of COVID-19 in hospitalised immunocompromised patients: an analysis of the WHO ISARIC CCP-UK prospective cohort study, Cold Spring Harbor Laboratory.
Flowers P, McLeod J, Mapp F, Stirrup O, Blackstone J, Snell LB, Peters C, Thomson E, Holmes A, Price J , Partridge D et al () How acceptable is rapid whole genome sequencing for infectious disease management in hospitals? Perspectives of those involved in managing nosocomial SARS-CoV-2, Cold Spring Harbor Laboratory.
Moore SC, Kronsteiner B, Longet S, Adele S, Deeks AS, Liu C, Dejnirattisai W, Silva Reyes L, Meardon N, Faustini S , Al-Taei S et al () Evolution of long-term hybrid immunity in healthcare workers after different COVID-19 vaccination regimens: a longitudinal observational cohort study, Cold Spring Harbor Laboratory.
Stirrup O, Blackstone J, Mapp F, MacNeil A, Panca M, Holmes A, Machin N, Shin GY, Mahungu T, Saeed K , Saluja T et al () Evaluating the effectiveness of rapid SARS-CoV-2 genome sequencing in supporting infection control teams: the COG-UK hospital-onset COVID-19 infection study, Cold Spring Harbor Laboratory.
Phillips E, Adele S, Malone T, Deeks A, Stafford L, Dobson SL, Amini A, Skelly D, Eyre D, Jeffery K , Conlon CP et al () Comparison of two T cell assays to evaluate T cell responses to SARS-CoV-2 following vaccination in naïve and convalescent healthcare workers, Cold Spring Harbor Laboratory.
Smallman-Raynor MR & Cliff AD () Spatial Growth Rate of Emerging SARS-CoV-2 Lineages in England, September 2020–December 2021, Cold Spring Harbor Laboratory.
Asante I, Nienyun Hsu S, Boatemaa L, Kwash L, Aduesi-Poku M, Odom JK, Awuku-Larbi Y, Foulkes BH, Oliver-Commey J, Asiedu E , Parker M et al () Genomic Surveillance of SARS-CoV-2 in Ghana: Leveraging an Integrated National Influenza and SARS-CoV-2 Platform.
Moore S, Kronsteiner B, Longet S, Adele S, Deeks A, Liu C, Dejnirattisai W, Silva Reyes L, Meardon N, Faustini S , Al-Taei S et al () Evolution of Long-Term Hybrid Immunity in Healthcare Workers after Different Covid-19 Vaccination Regimens: A Longitudinal Observational Cohort Study.
Williams DM, Hornsby H, Shehata OM, Brown R, Zafred D, Shun-Shion ASM, Hodder AJ, Bliss D, Metcalfe A, Edgar JR , Gordon DE et al () A high content microscopy-based platform for detecting antibodies to the nucleocapsid, spike and membrane proteins of SARS-CoV-2, Cold Spring Harbor Laboratory.
Kartsonaki C () Characteristics and outcomes of an international cohort of 400,000 hospitalised patients with Covid-19, Cold Spring Harbor Laboratory.
Bah SY, Keeley AJ, Armitage EP, Khalid H, Chaudhuri RR, Senghore E, Manneh J, Tilley L, Marks M, Darboe S , Sesay AK et al () Comparative genomic analysis of skin and soft tissue Streptococcus pyogenes isolates from low- and high-income settings, Cold Spring Harbor Laboratory.
Payne RP, Longet S, Austin JA, Skelly D, Dejnirattisai W, Adele S, Meardon N, Faustini S, Al-Taei S, Moore S , Tipton T et al () Sustained T Cell Immunity, Protection and Boosting Using Extended Dosing Intervals of BNT162b2 mRNA Vaccine.
Hodgson D, Colton H, Hornsby H, Brown R, Mckenzie J, Bradley KL, James C, Lindsey BB, Birch S, Marsh L , Wood S et al () Risk factors for SARS-CoV-2 seroprevalence following the first pandemic wave in UK healthcare workers in a large NHS Foundation Trust.
Stirrup OT, Boshier FAT, Venturini C, Guerra-Assunção JA, Alcolea-Medina A, Becket AH, Charalampous T, da Silva Filipe A, Glaysher S, Khan T , Kulasegara-Shylini R et al () SARS-CoV-2 lineage B.1.1.7 is associated with greater disease severity among hospitalised women but not men, Cold Spring Harbor Laboratory.
Tomic* A, Skelly* DT, Ogbe* A, O'Connor* D, Pace M, Adland E, Alexander F, Ali M, Allott K, Ansari MA , Sandra Belij-Rammerstorfer et al () Divergent trajectories of antiviral memory after SARS-Cov-2 infection, Research Square Platform LLC.
de Silva TI, Liu G, Lindsey BB, Dong D, Shah D, Mentzer AJ, Angyal A, Brown R, Parker MD, Yin Z , Yao X et al () The Impact of Viral Mutations on Recognition by SARS-CoV-2 Specific T-Cells.
Jeewandara C, Jayathilaka D, Ranasinghe D, Hsu NS, Ariyaratne D, Jayadas TT, Madushanka D, Lindsey BB, Gomes L, Parker MD , Wijewickrama A et al () Genomic and epidemiological analysis of SARS-CoV-2 viruses in Sri Lanka, Cold Spring Harbor Laboratory.
Blackstone J, Stirrup O, Mapp F, Panca M, Copas A, Flowers P, Hockey L, Price J, Partridge D, Peters C , de Silva T et al () Protocol for the COG-UK hospital onset COVID-19 infection (HOCI) multicentre interventional clinical study: evaluating the efficacy of rapid genome sequencing of SARS-CoV-2 in limiting the spread of COVID-19 in United Kingdom NHS hospitals, Cold Spring Harbor Laboratory.
Angyal A, Longet S, Moore S, Payne RP, Harding A, Tipton T, Rongkard P, Hering LM, Meardon N, Skelly D , Gillson N et al () T-Cell and Antibody Responses to First BNT162b2 Vaccine Dose in Previously SARS-CoV-2-Infected and Infection-Naive UK Healthcare Workers: A Multicentre, Prospective, Observational Cohort Study.
Parker MD, Lindsey BB, Shah DR, Hsu S, Keeley AJ, Partridge DG, Leary S, Cope A, State A, Johnson K , Ali N et al () Altered Subgenomic RNA Expression in SARS-CoV-2 B.1.1.7 Infections.
Golubchik T, Lythgoe KA, Hall M, Ferretti L, Fryer HR, MacIntyre-Cockett G, de Cesare M, Trebes A, Piazza P, Buck D , Todd JA et al () Early analysis of a potential link between viral load and the N501Y mutation in the SARS-COV-2 spike protein, Cold Spring Harbor Laboratory.
Leclerc QJ, Fuller NM, Keogh RH, Diaz-Ordaz K, Sekula R, Semple MG, Atkins KE, Procter SR & Knight GM () Importance of patient bed pathways and length of stay differences in predicting COVID-19 bed occupancy in England, Cold Spring Harbor Laboratory.
Mashe T, Takawira FT, Martins LDO, Gudza-Mugabe M, Chirenda J, Munyanyi M, Chaibva BV, Tarupiwa A, Gumbo H, Juru A , Nyagupe C et al () Genomic epidemiology of the SARS-CoV-2 epidemic in Zimbabwe: Role of international travel and regional migration in spread, Cold Spring Harbor Laboratory.
Peno C, Armitage E, Clerc M, Balcazar CL, Jagne YJ, Drammeh S, Jarju S, Sallah H, Senghore E, Lindsey BB , Camara J et al () The Effect of Live Attenuated Influenza Vaccine on Pneumococcal Colonisation Densities Among Children Aged 24-59 Months in the Gambia - A Phase IV, Open Label, Randomised Controlled Trial.
Tettamanti FAT, Venturini C, Stirrup OT, Guerra-Assuncao JA, Alcolea-Medina A, Becket AH, Byott M, Charalampous T, da Silva Filipe A, Frampton D , Glaysher S et al () The Alpha Variant B.1.1.7 Was Not Associated With Excess Healthcare Acquired COVID-19 Infection in a Multi-Centre UK Hospital Study.
Costa-Martins AG, Mane K, Lindsey BB, Ogava RLT, Castro Í, Jagne YJ, Sallah H, Armitage E, Ahadzie B, Ellis-Watson R , Tregoning JS et al () Pre-Existing Upregulation of Interferon Pathways in the Nasopharynx Impacts Viral Shedding Following Live Attenuated Influenza Vaccine Challenge in Children.
Russell CD, Fairfield CJ, Drake TM, Turtle L, Seaton RA, Wootton DG, Sigfrid L, Harrison EM, Docherty A, de Silva TI , Egan C et al () Co-Infections, Secondary Infections, and Antimicrobial Usage in Hospitalised Patients with COVID-19 from the ISARIC WHO CCP-UK Study: A Prospective, Multicentre Cohort Study.
Kearns P, Siebert S, willicombe M, Gaskell C, Kirkham A, Pirrie S, Bowden S, Magwaro S, Hughes A, Lim Z , Dimitriadis S et al () Examining the Immunological Effects of COVID-19 Vaccination in Patients with Conditions Potentially Leading to Diminished Immune Response Capacity – The OCTAVE Trial.
Davies NG, Abbott S, Barnard RC, Jarvis CI, Kucharski AJ, Munday JD, Pearson CAB, Russell TW, Tully DC, Washburne AD , Wenseleers T et al () Estimated transmissibility and impact of SARS-CoV-2 lineage B.1.1.7 in England, Cold Spring Harbor Laboratory.
Roca A () Intense and Mild Wave of COVID-19 in the Gambia: A Cohort Analysis.
Roca A () Intense and Mild Wave of COVID-19 in The Gambia: a Cohort Analysis, Cold Spring Harbor Laboratory.
Jagne I, Keeley AJ, Bojang A, Camara B, Jallow E, Senghore E, Oluwalana C, Bah SY, Turner CE, Sesay AK , D’Alessandro U et al () Impact of intra-partum Azithromycin on carriage of group A streptococcus in The Gambia: a posthoc analysis of a double-blind randomized placebo-controlled trial, Cold Spring Harbor Laboratory.
Stirrup OT, Hughes J, Parker M, Partridge DG, Shepherd JG, Blackstone J, Coll F, Keeley AJ, Lindsey BB, Marek A , Peters C et al () Rapid feedback on hospital onset SARS-CoV-2 infections combining epidemiological and sequencing data.
Ogbe A, Kronsteiner B, Skelly DT, Pace M, Brown A, Adland E, Adair K, Akhter HD, Ali M, Ali S-E , Angyal A et al () T cell assays differentiate clinical and subclinical SARS-CoV-2 infections from cross-reactive antiviral responses.
ten-Caten F, Gonzalez-Dias P, Castro Í, Ogava RLT, Giddaluru J, Silva JCS, Martins F, Gonçalves ANA, Costa-Martins AG, Araujo JD , Viegas AC et al () In-depth Analysis of Laboratory Parameters Reveals the Interplay Between Sex, Age and Systemic Inflammation in Individuals with COVID-19.
Weissman D, Alameh M-G, de Silva T, Collini P, Hornsby H, Brown R, LaBranche CC, Edwards RJ, Sutherland L, Santra S , Mansouri K et al () D614G Spike Mutation Increases SARS CoV-2 Susceptibility to Neutralization, Cold Spring Harbor Laboratory.
Korber B, Fischer WM, Gnanakaran S, Yoon H, Theiler J, Abfalterer W, Foley B, Giorgi EE, Bhattacharya T, Parker MD , Partridge DG et al () Spike mutation pipeline reveals the emergence of a more transmissible form of SARS-CoV-2, Cold Spring Harbor Laboratory.
Adams ER, Ainsworth M, Anand R, Andersson MI, Auckland K, Baillie JK, Barnes E, Beer S, Bell J, Berry T , Bibi S et al () Antibody testing for COVID-19: A report from the National COVID Scientific Advisory Panel, Cold Spring Harbor Laboratory.
Lindsey BB, Jagne YJ, Armitage EP, Singanayagam A, Sallah HJ, Drammeh S, Senghore E, Mohammed NI, Jeffries D, Höschler K , Tregoning JS et al () Use of a pandemic H1N1 strain with updated haemagglutinin and neuraminidase results in increased nasopharyngeal shedding and improved immunogenicity to Russian-backbone live attenuated influenza vaccine among children aged 2 – 4 years old: an open-label, prospective, observational, phase 4 study in The Gambia, Cold Spring Harbor Laboratory.
McTavish SM, Snow SJ, Cook EC, Pichon B, Coleman S, Coombs GW, Pang S, Arias CA, Díaz L, Boldock E , Davies S et al () Genomic and epidemiological evidence of a dominant Panton-Valentine leucocidin-positive Methicillin Resistant Staphylococcus aureus lineage in Sri Lanka with spread to the United Kingdom and Australia, Cold Spring Harbor Laboratory.
Boswell MT, Nazziwa J, Kuroki K, Palm A, Karlson S, Månsson F, Biague A, da Silva ZJ, Onyango CO, de Silva TI , Jaye A et al () Intrahost evolution of the HIV-2 capsid correlates with progression to AIDS, Cold Spring Harbor Laboratory.

Teaching interests: I am involved in delivering the undergraduate (MBChB) Infectious Diseases, Tropical Medicine and Microbiology curriculum at the University of Sheffield. I also lecture on the MSc in Antimicrobial Resistance (MED404), Molecular Medicine MSc (MED6006) and Pharmacology of Respiratory Disease (CDL302, Biomedical Science).

Professional activities and memberships

National and International

Wellcome Trust Early Career Interview Committee, Infection and Immunobiology (2022 – present)
Africa Research Excellence Fund (https://www.africaresearchexcellencefund.org.uk/) College of Experts (2022 – present)
Editorial Board Member, Communications Medicine (2022 – present)
British Society of Blood and Marrow Transplantation and cellular therapy (BSBMTCt), vaccination subcommittee (2020 – present)
Associate Editor, Journal of Infection (2019 - present)

Local

Director of CL3 suite, Medical School, University of Sheffield (2022 – present)
UREC Ethics reviewer for Medical School (2022 - present)
The Florey Institute Management Board, University of Sheffield (2019 - present)
University of Sheffield Biosafety Committee (2019 - present)
Member, Bioinformatics Core Steering Group (2020 – present)