2023

Nickbakhsh, S. , McWilliam Leitch, E. C., Smith, S., Davis, C. , Hutchinson, S., Irving, W. L., McLauchlan, J. and Thomson, E. C. (2023) Geographical variation in Hepatitis C-related severe liver disease and patient risk factors: a multicentre cross-sectional study. Epidemiology and Infection, (doi: 10.1017/S0950268823000377) (PMID:36915219) (Early Online Publication)

Parker, E. et al. (2023) SARS-CoV-2 antibody responses associate with sex, age and disease severity in previously uninfected people admitted to hospital with COVID-19: an ISARIC4C prospective study. Frontiers in Immunology, (Accepted for Publication)

Liew, F. 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, 104402. (doi: 10.1016/j.ebiom.2022.104402) (PMID:36543718) (PMCID:PMC9762734)

Turtle, L. 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), e1004086. (doi: 10.1371/journal.pmed.1004086) (PMID:36719907) (PMCID:PMC9928075)

2022

Vink, E. et al. (2022) Viral co-infections in hospitalised COVID-19 patients recruited to the ISARIC WHO CCP-UK study. Open Forum Infectious Diseases, 9(11), ofac531. (doi: 10.1093/ofid/ofac531) (PMID:36381618) (PMCID:PMC9619746)

Aranday-Cortes, E. et al. (2022) Real-world outcomes of direct-acting antiviral treatment and retreatment in United Kingdom–based patients infected with hepatitis C virus genotypes/subtypes endemic in Africa. Journal of Infectious Diseases, 226(6), pp. 995-1004. (doi: 10.1093/infdis/jiab110) (PMID:33668068) (PMCID:PMC9492310)

Shah, R. et al. (2022) Characterisation of a hepatitis C virus subtype 2a cluster in Scottish PWID with a suboptimal response to glecaprevir/pibrentasvir treatment. Viruses, 14(8), 1678. (doi: 10.3390/v14081678) (PMID:36016300) (PMCID:PMC9416734)

Willett, B. J. et al. (2022) SARS-CoV-2 Omicron is an immune escape variant with an altered cell entry pathway. Nature Microbiology, 7(8), pp. 1161-1179. (doi: 10.1038/s41564-022-01143-7) (PMID:35798890) (PMCID:PMC9352574)

Dowell, A. C. et al. (2022) mRNA or ChAd0x1 COVID-19 vaccination of adolescents induces robust antibody and cellular responses with continued recognition of omicron following mRNA-1273. Frontiers in Immunology, 13, 882515. (doi: 10.3389/fimmu.2022.882515) (PMID:35720281) (PMCID:PMC9201026)

Knight, S. R. et al. (2022) Prospective validation of the 4C prognostic models for adults hospitalised with COVID-19 using the ISARIC WHO Clinical Characterisation Protocol. Thorax, 77(6), pp. 606-615. (doi: 10.1136/thoraxjnl-2021-217629) (PMID:34810237) (PMCID:PMC8610617)

Relph, K. A. 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), ofac179. (doi: 10.1093/ofid/ofac179) (PMID:35531376) (PMCID:PMC9070482)

Närhi, F. et al. (2022) Implementation of corticosteroids in treatment of COVID-19 in the ISARIC WHO Clinical Characterisation Protocol UK: prospective, cohort study. Lancet Digital Health, 4(4), e220-e234. (doi: 10.1016/S2589-7500(22)00018-8) (PMID:35337642) (PMCID:PMC8940185)

Rosadas, C. et al. (2022) Detection and quantification of antibody to SARS CoV 2 receptor binding domain provides enhanced sensitivity, specificity and utility. Journal of Virological Methods, 302, 114475. (doi: 10.1016/j.jviromet.2022.114475) (PMID:35077719) (PMCID:PMC8782753)

Stockdale, A. J. et al. (2022) A clinical and molecular epidemiological survey of hepatitis C in Blantyre, Malawi suggests an historic mechanism of transmission. Journal of Viral Hepatitis, 29(4), pp. 252-262. (doi: 10.1111/jvh.13646) (PMID:35075742) (PMCID:PMC9305194)

Sullivan, M. K. et al. (2022) Acute kidney injury in patients hospitalised with COVID-19 from the ISARIC WHO CCP-UK Study: a prospective, multicentre cohort study. Nephrology Dialysis Transplantation, 37(2), pp. 271-284. (doi: 10.1093/ndt/gfab303) (PMID:34661677) (PMCID:PMC8788218)

Parry, H. et al. (2022) Impaired neutralisation of SARS-CoV-2 delta variant in vaccinated patients with B cell chronic lymphocytic leukaemia. Journal of Hematology and Oncology, 15(1), 3. (doi: 10.1186/s13045-021-01219-7) (PMID:35000597) (PMCID:PMC8743056)

Dowell, A. C. et al. (2022) Children develop robust and sustained cross-reactive spike-specific immune responses to SARS-CoV-2 infection. Nature Immunology, 23(1), pp. 40-49. (doi: 10.1038/s41590-021-01089-8) (PMID:34937928) (PMCID:PMC8709786)

2021

Davis, C. et al. (2021) Reduced neutralisation of the Delta (B.1.617.2) SARS-CoV-2 variant of concern following vaccination. PLoS Pathogens, 17(12), e1010022. (doi: 10.1371/journal.ppat.1010022) (PMID:34855916) (PMCID:PMC8639073)

Herder, V. et al. (2021) Elevated temperature inhibits SARS-CoV-2 replication in respiratory epithelium independently of IFN-mediated innate immune defences. PLoS Biology, 19(12), e3001065. (doi: 10.1371/journal.pbio.3001065) (PMID:34932557) (PMCID:PMC8765667)

Witkowska McConnell, W. et al. (2021) Paper microfluidic implementation of loop mediated isothermal amplification for early diagnosis of hepatitis C virus. Nature Communications, 12, 6994. (doi: 10.1038/s41467-021-27076-z) (PMID:34848705) (PMCID:PMC8632961)

Collier, D. A. et al. (2021) Age-related immune response heterogeneity to SARS-CoV-2 vaccine BNT162b2. Nature, 596(7872), pp. 417-422. (doi: 10.1038/s41586-021-03739-1) (PMID:34192737) (PMCID:PMC8373615)

Drake, T. M. 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. Lancet, 398(10296), pp. 223-237. (doi: 10.1016/S0140-6736(21)00799-6) (PMID:34274064) (PMCID:PMC8285118)

Davis, C. A. et al. (2021) Hepatitis E virus: whole genome sequencing as a new tool for understanding HEV epidemiology and phenotypes. Journal of Clinical Virology, 139, 104738. (doi: 10.1016/j.jcv.2021.104738) (PMID:33933822)

Gupta, R. K. et al. (2021) Development and validation of the ISARIC 4C Deterioration model for adults hospitalised with COVID-19: a prospective cohort study. Lancet Respiratory Medicine, 9(4), pp. 349-359. (doi: 10.1016/S2213-2600(20)30559-2) (PMID:33444539) (PMCID:PMC7832571)

Thomson, E. C. et al. (2021) Circulating SARS-CoV-2 spike N439K variants maintain fitness while evading antibody-mediated immunity. Cell, 184(5), 1171-1187.e20. (doi: 10.1016/j.cell.2021.01.037) (PMID:33621484) (PMCID:PMC7843029)

Rihn, S. J. et al. (2021) A plasmid DNA-launched SARS-CoV-2 reverse genetics system and coronavirus toolkit for COVID-19 research. PLoS Biology, 19(2), e3001091. (doi: 10.1371/journal.pbio.3001091) (PMID:33630831) (PMCID:PMC7906417)

Bangura, U. et al. (2021) Lassa virus circulation in small mammal populations in Bo District, Sierra Leone. Biology, 10(1), 28. (doi: 10.3390/biology10010028) (PMID:33466234) (PMCID:PMC7824740)

Da Silva Filipe, A. et al. (2021) Genomic epidemiology reveals multiple introductions of SARS-CoV-2 from mainland Europe into Scotland. Nature Microbiology, 6(1), pp. 112-122. (doi: 10.1038/s41564-020-00838-z) (PMID:33349681)

Parker, M. D. et al. (2021) Subgenomic RNA identification in SARS-CoV-2 genomic sequencing data. Genome Research, 31, pp. 645-658. (doi: 10.1101/gr.268110.120) (PMID:33722935) (PMCID:PMC8015849)

2020

Gilbert, M. et al. (2020) Distemper, extinction and vaccination of the Amur tiger. Proceedings of the National Academy of Sciences of the United States of America, 117(50), pp. 31954-31962. (doi: 10.1073/pnas.2000153117) (PMID:33229566) (PMCID:PMC7749280)

Davis, C. et al. (2020) Postexposure prophylaxis with rVSV-ZEBOV following exposure to a patient with Ebola virus disease relapse in the United Kingdom: an operational, safety, and immunogenicity report. Clinical Infectious Diseases, 71(11), pp. 2872-2879. (doi: 10.1093/cid/ciz1165) (PMID:31784751) (PMCID:PMC7778350)

Knight, S. R. et al. (2020) Risk stratification of patients admitted to hospital with covid-19 using the ISARIC WHO Clinical Characterisation Protocol: development and validation of the 4C Mortality Score. British Medical Journal, 2020, 370. (doi: 10.1136/bmj.m3339) (PMID:32907855)

Swann, O. V. et al. (2020) Clinical characteristics of children and young people admitted to hospital with covid-19 in United Kingdom: prospective multicentre observational cohort study. British Medical Journal, 370, m3249. (doi: 10.1136/bmj.m3249) (PMID:32960186) (PMCID:PMC7488201)

Bradshaw, D. et al. (2020) Transmission of hepatitis C virus in HIV‐positive and PrEP‐using MSM in England. Journal of Viral Hepatitis, 27(7), pp. 721-730. (doi: 10.1111/jvh.13286) (PMID:32115809)

2019

Childs, K. et al. (2019) Suboptimal SVR rates in African patients with atypical Genotype 1 subtypes: implications for global elimination of Hepatitis C. Journal of Hepatology, 71(6), pp. 1099-1105. (doi: 10.1016/j.jhep.2019.07.025) (PMID:31400349)

Jerome, H. et al. (2019) Metagenomic next-generation sequencing aids the diagnosis of viral infections in febrile returning travellers. Journal of Infection, 79(4), pp. 383-388. (doi: 10.1016/j.jinf.2019.08.003) (PMID:31398374) (PMCID:PMC6859916)

Ankcorn, M. et al. (2019) Convalescent plasma therapy for persistent hepatitis E virus infection. Journal of Hepatology, 71(2), pp. 434-438. (doi: 10.1016/j.jhep.2019.04.008) (PMID:31075322)

Davis, C. et al. (2019) New highly diverse hepatitis C strains detected in sub‐Saharan Africa have unknown susceptibility to direct‐acting antiviral treatments. Hepatology, 69(4), pp. 1426-1441. (doi: 10.1002/hep.30342) (PMID:30387174) (PMCID:PMC6492010)

2017

Briggs, L. C., Chan, A.W. E., Davis, C. A. , Whitelock, N., Hotiana, H. A., Baratchian, M., Bagnéris, C., Selwood, D. L., Collins, M. K. and Barrett, T. E. (2017) IKKγ mimetic peptides block the resistance to apoptosis associated with KSHV infection. Journal of Virology, 91(23), e01170-17. (doi: 10.1128/JVI.01170-17) (PMID:28931678) (PMCID:PMC5686756)

2016

Donald, C. L. et al. (2016) Full genome sequence and sfRNA interferon antagonist activity of Zika virus from Recife, Brazil. PLoS Neglected Tropical Diseases, 10(10), e0005048. (doi: 10.1371/journal.pntd.0005048) (PMID:27706161) (PMCID:PMC5051680)

Articles

Nickbakhsh, S. , McWilliam Leitch, E. C., Smith, S., Davis, C. , Hutchinson, S., Irving, W. L., McLauchlan, J. and Thomson, E. C. (2023) Geographical variation in Hepatitis C-related severe liver disease and patient risk factors: a multicentre cross-sectional study. Epidemiology and Infection, (doi: 10.1017/S0950268823000377) (PMID:36915219) (Early Online Publication)

Parker, E. et al. (2023) SARS-CoV-2 antibody responses associate with sex, age and disease severity in previously uninfected people admitted to hospital with COVID-19: an ISARIC4C prospective study. Frontiers in Immunology, (Accepted for Publication)

Liew, F. 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, 104402. (doi: 10.1016/j.ebiom.2022.104402) (PMID:36543718) (PMCID:PMC9762734)

Turtle, L. 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), e1004086. (doi: 10.1371/journal.pmed.1004086) (PMID:36719907) (PMCID:PMC9928075)

Vink, E. et al. (2022) Viral co-infections in hospitalised COVID-19 patients recruited to the ISARIC WHO CCP-UK study. Open Forum Infectious Diseases, 9(11), ofac531. (doi: 10.1093/ofid/ofac531) (PMID:36381618) (PMCID:PMC9619746)

Aranday-Cortes, E. et al. (2022) Real-world outcomes of direct-acting antiviral treatment and retreatment in United Kingdom–based patients infected with hepatitis C virus genotypes/subtypes endemic in Africa. Journal of Infectious Diseases, 226(6), pp. 995-1004. (doi: 10.1093/infdis/jiab110) (PMID:33668068) (PMCID:PMC9492310)

Shah, R. et al. (2022) Characterisation of a hepatitis C virus subtype 2a cluster in Scottish PWID with a suboptimal response to glecaprevir/pibrentasvir treatment. Viruses, 14(8), 1678. (doi: 10.3390/v14081678) (PMID:36016300) (PMCID:PMC9416734)

Willett, B. J. et al. (2022) SARS-CoV-2 Omicron is an immune escape variant with an altered cell entry pathway. Nature Microbiology, 7(8), pp. 1161-1179. (doi: 10.1038/s41564-022-01143-7) (PMID:35798890) (PMCID:PMC9352574)

Dowell, A. C. et al. (2022) mRNA or ChAd0x1 COVID-19 vaccination of adolescents induces robust antibody and cellular responses with continued recognition of omicron following mRNA-1273. Frontiers in Immunology, 13, 882515. (doi: 10.3389/fimmu.2022.882515) (PMID:35720281) (PMCID:PMC9201026)

Knight, S. R. et al. (2022) Prospective validation of the 4C prognostic models for adults hospitalised with COVID-19 using the ISARIC WHO Clinical Characterisation Protocol. Thorax, 77(6), pp. 606-615. (doi: 10.1136/thoraxjnl-2021-217629) (PMID:34810237) (PMCID:PMC8610617)

Relph, K. A. 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), ofac179. (doi: 10.1093/ofid/ofac179) (PMID:35531376) (PMCID:PMC9070482)

Närhi, F. et al. (2022) Implementation of corticosteroids in treatment of COVID-19 in the ISARIC WHO Clinical Characterisation Protocol UK: prospective, cohort study. Lancet Digital Health, 4(4), e220-e234. (doi: 10.1016/S2589-7500(22)00018-8) (PMID:35337642) (PMCID:PMC8940185)

Rosadas, C. et al. (2022) Detection and quantification of antibody to SARS CoV 2 receptor binding domain provides enhanced sensitivity, specificity and utility. Journal of Virological Methods, 302, 114475. (doi: 10.1016/j.jviromet.2022.114475) (PMID:35077719) (PMCID:PMC8782753)

Stockdale, A. J. et al. (2022) A clinical and molecular epidemiological survey of hepatitis C in Blantyre, Malawi suggests an historic mechanism of transmission. Journal of Viral Hepatitis, 29(4), pp. 252-262. (doi: 10.1111/jvh.13646) (PMID:35075742) (PMCID:PMC9305194)

Sullivan, M. K. et al. (2022) Acute kidney injury in patients hospitalised with COVID-19 from the ISARIC WHO CCP-UK Study: a prospective, multicentre cohort study. Nephrology Dialysis Transplantation, 37(2), pp. 271-284. (doi: 10.1093/ndt/gfab303) (PMID:34661677) (PMCID:PMC8788218)

Parry, H. et al. (2022) Impaired neutralisation of SARS-CoV-2 delta variant in vaccinated patients with B cell chronic lymphocytic leukaemia. Journal of Hematology and Oncology, 15(1), 3. (doi: 10.1186/s13045-021-01219-7) (PMID:35000597) (PMCID:PMC8743056)

Dowell, A. C. et al. (2022) Children develop robust and sustained cross-reactive spike-specific immune responses to SARS-CoV-2 infection. Nature Immunology, 23(1), pp. 40-49. (doi: 10.1038/s41590-021-01089-8) (PMID:34937928) (PMCID:PMC8709786)

Davis, C. et al. (2021) Reduced neutralisation of the Delta (B.1.617.2) SARS-CoV-2 variant of concern following vaccination. PLoS Pathogens, 17(12), e1010022. (doi: 10.1371/journal.ppat.1010022) (PMID:34855916) (PMCID:PMC8639073)

Herder, V. et al. (2021) Elevated temperature inhibits SARS-CoV-2 replication in respiratory epithelium independently of IFN-mediated innate immune defences. PLoS Biology, 19(12), e3001065. (doi: 10.1371/journal.pbio.3001065) (PMID:34932557) (PMCID:PMC8765667)

Witkowska McConnell, W. et al. (2021) Paper microfluidic implementation of loop mediated isothermal amplification for early diagnosis of hepatitis C virus. Nature Communications, 12, 6994. (doi: 10.1038/s41467-021-27076-z) (PMID:34848705) (PMCID:PMC8632961)

Collier, D. A. et al. (2021) Age-related immune response heterogeneity to SARS-CoV-2 vaccine BNT162b2. Nature, 596(7872), pp. 417-422. (doi: 10.1038/s41586-021-03739-1) (PMID:34192737) (PMCID:PMC8373615)

Drake, T. M. 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. Lancet, 398(10296), pp. 223-237. (doi: 10.1016/S0140-6736(21)00799-6) (PMID:34274064) (PMCID:PMC8285118)

Davis, C. A. et al. (2021) Hepatitis E virus: whole genome sequencing as a new tool for understanding HEV epidemiology and phenotypes. Journal of Clinical Virology, 139, 104738. (doi: 10.1016/j.jcv.2021.104738) (PMID:33933822)

Gupta, R. K. et al. (2021) Development and validation of the ISARIC 4C Deterioration model for adults hospitalised with COVID-19: a prospective cohort study. Lancet Respiratory Medicine, 9(4), pp. 349-359. (doi: 10.1016/S2213-2600(20)30559-2) (PMID:33444539) (PMCID:PMC7832571)

Thomson, E. C. et al. (2021) Circulating SARS-CoV-2 spike N439K variants maintain fitness while evading antibody-mediated immunity. Cell, 184(5), 1171-1187.e20. (doi: 10.1016/j.cell.2021.01.037) (PMID:33621484) (PMCID:PMC7843029)

Rihn, S. J. et al. (2021) A plasmid DNA-launched SARS-CoV-2 reverse genetics system and coronavirus toolkit for COVID-19 research. PLoS Biology, 19(2), e3001091. (doi: 10.1371/journal.pbio.3001091) (PMID:33630831) (PMCID:PMC7906417)

Bangura, U. et al. (2021) Lassa virus circulation in small mammal populations in Bo District, Sierra Leone. Biology, 10(1), 28. (doi: 10.3390/biology10010028) (PMID:33466234) (PMCID:PMC7824740)

Da Silva Filipe, A. et al. (2021) Genomic epidemiology reveals multiple introductions of SARS-CoV-2 from mainland Europe into Scotland. Nature Microbiology, 6(1), pp. 112-122. (doi: 10.1038/s41564-020-00838-z) (PMID:33349681)

Parker, M. D. et al. (2021) Subgenomic RNA identification in SARS-CoV-2 genomic sequencing data. Genome Research, 31, pp. 645-658. (doi: 10.1101/gr.268110.120) (PMID:33722935) (PMCID:PMC8015849)

Gilbert, M. et al. (2020) Distemper, extinction and vaccination of the Amur tiger. Proceedings of the National Academy of Sciences of the United States of America, 117(50), pp. 31954-31962. (doi: 10.1073/pnas.2000153117) (PMID:33229566) (PMCID:PMC7749280)

Davis, C. et al. (2020) Postexposure prophylaxis with rVSV-ZEBOV following exposure to a patient with Ebola virus disease relapse in the United Kingdom: an operational, safety, and immunogenicity report. Clinical Infectious Diseases, 71(11), pp. 2872-2879. (doi: 10.1093/cid/ciz1165) (PMID:31784751) (PMCID:PMC7778350)

Knight, S. R. et al. (2020) Risk stratification of patients admitted to hospital with covid-19 using the ISARIC WHO Clinical Characterisation Protocol: development and validation of the 4C Mortality Score. British Medical Journal, 2020, 370. (doi: 10.1136/bmj.m3339) (PMID:32907855)

Swann, O. V. et al. (2020) Clinical characteristics of children and young people admitted to hospital with covid-19 in United Kingdom: prospective multicentre observational cohort study. British Medical Journal, 370, m3249. (doi: 10.1136/bmj.m3249) (PMID:32960186) (PMCID:PMC7488201)

Bradshaw, D. et al. (2020) Transmission of hepatitis C virus in HIV‐positive and PrEP‐using MSM in England. Journal of Viral Hepatitis, 27(7), pp. 721-730. (doi: 10.1111/jvh.13286) (PMID:32115809)

Childs, K. et al. (2019) Suboptimal SVR rates in African patients with atypical Genotype 1 subtypes: implications for global elimination of Hepatitis C. Journal of Hepatology, 71(6), pp. 1099-1105. (doi: 10.1016/j.jhep.2019.07.025) (PMID:31400349)

Jerome, H. et al. (2019) Metagenomic next-generation sequencing aids the diagnosis of viral infections in febrile returning travellers. Journal of Infection, 79(4), pp. 383-388. (doi: 10.1016/j.jinf.2019.08.003) (PMID:31398374) (PMCID:PMC6859916)

Ankcorn, M. et al. (2019) Convalescent plasma therapy for persistent hepatitis E virus infection. Journal of Hepatology, 71(2), pp. 434-438. (doi: 10.1016/j.jhep.2019.04.008) (PMID:31075322)

Davis, C. et al. (2019) New highly diverse hepatitis C strains detected in sub‐Saharan Africa have unknown susceptibility to direct‐acting antiviral treatments. Hepatology, 69(4), pp. 1426-1441. (doi: 10.1002/hep.30342) (PMID:30387174) (PMCID:PMC6492010)

Briggs, L. C., Chan, A.W. E., Davis, C. A. , Whitelock, N., Hotiana, H. A., Baratchian, M., Bagnéris, C., Selwood, D. L., Collins, M. K. and Barrett, T. E. (2017) IKKγ mimetic peptides block the resistance to apoptosis associated with KSHV infection. Journal of Virology, 91(23), e01170-17. (doi: 10.1128/JVI.01170-17) (PMID:28931678) (PMCID:PMC5686756)

Donald, C. L. et al. (2016) Full genome sequence and sfRNA interferon antagonist activity of Zika virus from Recife, Brazil. PLoS Neglected Tropical Diseases, 10(10), e0005048. (doi: 10.1371/journal.pntd.0005048) (PMID:27706161) (PMCID:PMC5051680)