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, 151, e59. (doi: 10.1017/S0950268823000377) (PMID:36915219) (PMCID:PMC10126891)

2022

Nickbakhsh, S. et al. (2022) Genomic epidemiology of SARS-CoV-2 in a university outbreak setting and implications for public health planning. Scientific Reports, 12, 11735. (doi: 10.1038/s41598-022-15661-1) (PMID:35853960) (PMCID:PMC9296497)

Metcalf, C. J. E., Paireau, J., O'Driscoll, M., Pivette, M., Hubert, B., Pontais, I., Nickbakhsh, S. , Cummings, D. A.T., Cauchemez, S. and Salje, H. (2022) Comparing the age and sex trajectories of SARS-CoV-2 morbidity and mortality with other respiratory pathogens. Royal Society Open Science, 9(6), 211498. (doi: 10.1098/rsos.211498) (PMID:35719888) (PMCID:PMC9198511)

Aggarwal, D. et al. (2022) Genomic assessment of quarantine measures to prevent SARS-CoV-2 importation and transmission. Nature Communications, 13, 1012. (doi: 10.1038/s41467-022-28371-z) (PMID:35197443) (PMCID:PMC8866425)

Aggarwal, D. et al. (2022) Genomic epidemiology of SARS-CoV-2 in a UK university identifies dynamics of transmission. Nature Communications, 13, 751. (doi: 10.1038/s41467-021-27942-w) (PMID:35136068) (PMCID:PMC8826310)

2021

Volz, E. et al. (2021) Assessing transmissibility of SARS-CoV-2 lineage B.1.1.7 in England. Nature, 593(7858), pp. 266-269. (doi: 10.1038/s41586-021-03470-x) (PMID:33767447)

Hughes, E. C. et al. (2021) Severe Acute Respiratory Syndrome Coronavirus 2 serosurveillance in a patient population reveals differences in virus exposure and antibody-mediated immunity according to host demography and healthcare setting. Journal of Infectious Diseases, 223(6), pp. 971-980. (doi: 10.1093/infdis/jiaa788) (PMID:33367847) (PMCID:PMC7798933)

Kronfeld-Schor, N., Stevenson, T., Nickbakhsh, S. , Schernhammer, E., Dopico, X., Dayan, T., Martinez, M. and Helm, B. (2021) Drivers of infectious disease seasonality: potential implications for COVID-19. Journal of Biological Rhythms, 36(1), pp. 35-54. (doi: 10.1177/0748730420987322) (PMID:33491541) (PMCID:PMC7924107)

2020

Nickbakhsh, S. , Ho, A. , Marques, D. F.P., McMenamin, J., Gunson, R. N. and Murcia, P. R. (2020) Reply to Li et al. Journal of Infectious Diseases, 222(4), pp. 696-698. (doi: 10.1093/infdis/jiaa322) (PMID:32497172)

Nickbakhsh, S. , Ho, A. , Marques, D. F.P., McMenamin, J., Gunson, R. N. and Murcia, P. R. (2020) Epidemiology of seasonal coronaviruses: establishing the context for the emergence of coronavirus disease 2019. Journal of Infectious Diseases, 222(1), pp. 17-25. (doi: 10.1093/infdis/jiaa185) (PMID:32296837) (PMCID:PMC7184404)

Nickbakhsh, S. , Mair, C. , Matthews, L. , Reeve, R. , Johnson, P.C.D. , Thorburn, F., Von Wissmann, B., McMenamin, J., Gunson, R.N. and Murcia, P.R. (2020) Reply to Kloepfer and Gern: Independent studies suggest an arms race between influenza and rhinovirus: what next? Proceedings of the National Academy of Sciences of the United States of America, 117(13), pp. 6988-6989. (doi: 10.1073/pnas.2000903117) (PMID:32127475) (PMCID:PMC7132304)

2019

Nickbakhsh, S. et al. (2019) Virus-virus interactions impact the population dynamics of influenza and the common cold. Proceedings of the National Academy of Sciences of the United States of America, 116(52), pp. 27142-27150. (doi: 10.1073/pnas.1911083116) (PMID:31843887) (PMCID:PMC6936719)

Mair, C. , Nickbakhsh, S. , Reeve, R. , McMenamin, J., Reynolds, A., Gunson, R. N., Murcia, P. R. and Matthews, L. (2019) Estimation of temporal covariances in pathogen dynamics using Bayesian multivariate autoregressive models. PLoS Computational Biology, 15(12), e1007492. (doi: 10.1371/journal.pcbi.1007492) (PMID:31834896) (PMCID:PMC6934324)

2018

Nickbakhsh, S. , McLauchlan, J. and Leitch, E. C. M. (2018) Evaluating “treatment as prevention” on the road to hepatitis C virus elimination. Annals of Blood, 3, 44. (doi: 10.21037/aob.2018.10.05)

2017

Niebel, M. , Singer, J. B., Nickbakhsh, S. , Gifford, R. J. and Thomson, E. C. (2017) Hepatitis C and the absence of genomic data in low-income countries: a barrier on the road to elimination? Lancet Gastroenterology and Hepatology, 2(10), pp. 700-701. (doi: 10.1016/S2468-1253(17)30257-1) (PMID:28895545)

2016

Nickbakhsh, S. , Hall, M. D., Dorigatti, I., Lycett, S. J. , Mulatti, P., Monne, I., Fusaro, A., Woolhouse, M. E.J., Rambaut, A. and Kao, R. R. (2016) Modelling the impact of co-circulating low pathogenic avian influenza viruses on epidemics of highly pathogenic avian influenza in poultry. Epidemics, 17, pp. 27-34. (doi: 10.1016/j.epidem.2016.10.005) (PMID:27788412)

Nickbakhsh, S. , Thorburn, F., Von Wissmann, B., McMenamin, J., Gunson, R. N. and Murcia, P. R. (2016) Extensive multiplex PCR diagnostics reveals new insights into the epidemiology of viral respiratory infections. Epidemiology and Infection, 144(10), pp. 2064-2076. (doi: 10.1017/S0950268816000339) (PMID:26931455)

2014

Nickbakhsh, S. , Matthews, L. , Reid, S. and Kao, R.R. (2014) A metapopulation model for highly pathogenic avian influenza: implications for compartmentalization as a control measure. Epidemiology and Infection, 142(09), pp. 1813-1825. (doi: 10.1017/S0950268813002963)

2013

Nickbakhsh, S. , Matthews, L. , Dent, J.E., Innocent, G.T., Arnold, M.E., Reid, S.W.J. and Kao, R.R. (2013) Implications of within-farm transmission for network dynamics: consequences for the spread of avian influenza. Epidemics, 5(2), pp. 67-76. (doi: 10.1016/j.epidem.2013.03.001)

2011

Nickbakhsh, S., Matthews, L. , Bessell, P.R., Reid, S.W.J. and Kao, R.R. (2011) Generating social network data using partially described networks: an example informing avian influenza control in the British poultry industry. BMC Veterinary Research, 7(66), (doi: 10.1186/1746-6148-7-66)

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, 151, e59. (doi: 10.1017/S0950268823000377) (PMID:36915219) (PMCID:PMC10126891)

Nickbakhsh, S. et al. (2022) Genomic epidemiology of SARS-CoV-2 in a university outbreak setting and implications for public health planning. Scientific Reports, 12, 11735. (doi: 10.1038/s41598-022-15661-1) (PMID:35853960) (PMCID:PMC9296497)

Metcalf, C. J. E., Paireau, J., O'Driscoll, M., Pivette, M., Hubert, B., Pontais, I., Nickbakhsh, S. , Cummings, D. A.T., Cauchemez, S. and Salje, H. (2022) Comparing the age and sex trajectories of SARS-CoV-2 morbidity and mortality with other respiratory pathogens. Royal Society Open Science, 9(6), 211498. (doi: 10.1098/rsos.211498) (PMID:35719888) (PMCID:PMC9198511)

Aggarwal, D. et al. (2022) Genomic assessment of quarantine measures to prevent SARS-CoV-2 importation and transmission. Nature Communications, 13, 1012. (doi: 10.1038/s41467-022-28371-z) (PMID:35197443) (PMCID:PMC8866425)

Aggarwal, D. et al. (2022) Genomic epidemiology of SARS-CoV-2 in a UK university identifies dynamics of transmission. Nature Communications, 13, 751. (doi: 10.1038/s41467-021-27942-w) (PMID:35136068) (PMCID:PMC8826310)

Volz, E. et al. (2021) Assessing transmissibility of SARS-CoV-2 lineage B.1.1.7 in England. Nature, 593(7858), pp. 266-269. (doi: 10.1038/s41586-021-03470-x) (PMID:33767447)

Hughes, E. C. et al. (2021) Severe Acute Respiratory Syndrome Coronavirus 2 serosurveillance in a patient population reveals differences in virus exposure and antibody-mediated immunity according to host demography and healthcare setting. Journal of Infectious Diseases, 223(6), pp. 971-980. (doi: 10.1093/infdis/jiaa788) (PMID:33367847) (PMCID:PMC7798933)

Kronfeld-Schor, N., Stevenson, T., Nickbakhsh, S. , Schernhammer, E., Dopico, X., Dayan, T., Martinez, M. and Helm, B. (2021) Drivers of infectious disease seasonality: potential implications for COVID-19. Journal of Biological Rhythms, 36(1), pp. 35-54. (doi: 10.1177/0748730420987322) (PMID:33491541) (PMCID:PMC7924107)

Nickbakhsh, S. , Ho, A. , Marques, D. F.P., McMenamin, J., Gunson, R. N. and Murcia, P. R. (2020) Reply to Li et al. Journal of Infectious Diseases, 222(4), pp. 696-698. (doi: 10.1093/infdis/jiaa322) (PMID:32497172)

Nickbakhsh, S. , Ho, A. , Marques, D. F.P., McMenamin, J., Gunson, R. N. and Murcia, P. R. (2020) Epidemiology of seasonal coronaviruses: establishing the context for the emergence of coronavirus disease 2019. Journal of Infectious Diseases, 222(1), pp. 17-25. (doi: 10.1093/infdis/jiaa185) (PMID:32296837) (PMCID:PMC7184404)

Nickbakhsh, S. , Mair, C. , Matthews, L. , Reeve, R. , Johnson, P.C.D. , Thorburn, F., Von Wissmann, B., McMenamin, J., Gunson, R.N. and Murcia, P.R. (2020) Reply to Kloepfer and Gern: Independent studies suggest an arms race between influenza and rhinovirus: what next? Proceedings of the National Academy of Sciences of the United States of America, 117(13), pp. 6988-6989. (doi: 10.1073/pnas.2000903117) (PMID:32127475) (PMCID:PMC7132304)

Nickbakhsh, S. et al. (2019) Virus-virus interactions impact the population dynamics of influenza and the common cold. Proceedings of the National Academy of Sciences of the United States of America, 116(52), pp. 27142-27150. (doi: 10.1073/pnas.1911083116) (PMID:31843887) (PMCID:PMC6936719)

Mair, C. , Nickbakhsh, S. , Reeve, R. , McMenamin, J., Reynolds, A., Gunson, R. N., Murcia, P. R. and Matthews, L. (2019) Estimation of temporal covariances in pathogen dynamics using Bayesian multivariate autoregressive models. PLoS Computational Biology, 15(12), e1007492. (doi: 10.1371/journal.pcbi.1007492) (PMID:31834896) (PMCID:PMC6934324)

Nickbakhsh, S. , McLauchlan, J. and Leitch, E. C. M. (2018) Evaluating “treatment as prevention” on the road to hepatitis C virus elimination. Annals of Blood, 3, 44. (doi: 10.21037/aob.2018.10.05)

Niebel, M. , Singer, J. B., Nickbakhsh, S. , Gifford, R. J. and Thomson, E. C. (2017) Hepatitis C and the absence of genomic data in low-income countries: a barrier on the road to elimination? Lancet Gastroenterology and Hepatology, 2(10), pp. 700-701. (doi: 10.1016/S2468-1253(17)30257-1) (PMID:28895545)

Nickbakhsh, S. , Hall, M. D., Dorigatti, I., Lycett, S. J. , Mulatti, P., Monne, I., Fusaro, A., Woolhouse, M. E.J., Rambaut, A. and Kao, R. R. (2016) Modelling the impact of co-circulating low pathogenic avian influenza viruses on epidemics of highly pathogenic avian influenza in poultry. Epidemics, 17, pp. 27-34. (doi: 10.1016/j.epidem.2016.10.005) (PMID:27788412)

Nickbakhsh, S. , Thorburn, F., Von Wissmann, B., McMenamin, J., Gunson, R. N. and Murcia, P. R. (2016) Extensive multiplex PCR diagnostics reveals new insights into the epidemiology of viral respiratory infections. Epidemiology and Infection, 144(10), pp. 2064-2076. (doi: 10.1017/S0950268816000339) (PMID:26931455)

Nickbakhsh, S. , Matthews, L. , Reid, S. and Kao, R.R. (2014) A metapopulation model for highly pathogenic avian influenza: implications for compartmentalization as a control measure. Epidemiology and Infection, 142(09), pp. 1813-1825. (doi: 10.1017/S0950268813002963)

Nickbakhsh, S. , Matthews, L. , Dent, J.E., Innocent, G.T., Arnold, M.E., Reid, S.W.J. and Kao, R.R. (2013) Implications of within-farm transmission for network dynamics: consequences for the spread of avian influenza. Epidemics, 5(2), pp. 67-76. (doi: 10.1016/j.epidem.2013.03.001)

Nickbakhsh, S., Matthews, L. , Bessell, P.R., Reid, S.W.J. and Kao, R.R. (2011) Generating social network data using partially described networks: an example informing avian influenza control in the British poultry industry. BMC Veterinary Research, 7(66), (doi: 10.1186/1746-6148-7-66)