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Dr Jonathan Read

Senior Lecturer in Biostatistics

  1. 2021
  2. Published

    Using serological measures to estimate influenza incidence in the presence of secular trends in exposure and immuno-modulation of antibody response

    Quandelacy, T. M., Cummings, D. A. T., Jiang, C. Q., Yang, B., Kwok, K. O., Dai, B., Shen, R., Read, J. M., Zhu, H., Guan, Y., Riley, S. & Lessler, J., 31/03/2021, In: Influenza and Other Respiratory Viruses. 15, 2, p. 235-244 10 p.

    Research output: Contribution to journalJournal articlepeer-review

  3. Published

    Influenza and other respiratory viral infections associated with absence from school among schoolchildren in Pittsburgh, Pennsylvania, USA: a cohort study

    Read, J. M., Zimmer, S., Vukotich C., J., Schweizer, M. L., Galloway, D., Lingle, C., Yearwood, G., Calderone, P., Noble, E., Quadelacy, T., Grantz, K., Rinaldo, C., Gao, H., Rainey, J., Uzicanin, A. & Cummings, D. A. T., 22/03/2021, In: BMC Infectious Diseases. 21, 1, 10 p., 291.

    Research output: Contribution to journalJournal articlepeer-review

  4. Published

    Reconstructing unseen transmission events to infer dengue dynamics from viral sequences

    Salje, H., Wesolowski, A., Brown, T. S., Kiang, M. V., Berry, I. M., Lefrancq, N., Fernandez, S., Jarman, R. G., Ruchusatsawat, K., Iamsirithaworn, S., Vandepitte, W. P., Suntarattiwong, P., Read, J. M., Klungthong, C., Thaisomboonsuk, B., Engø-Monsen, K., Buckee, C., Cauchemez, S. & Cummings, D. A. T., 22/03/2021, In: Nature Communications. 12, 1, 10 p., 1810.

    Research output: Contribution to journalJournal articlepeer-review

  5. Published

    Risk of mortality in patients infected with SARS-CoV-2 variant of concern 202012/1: Matched cohort study

    Challen, R., Brooks-Pollock, E., Read, J. M., Dyson, L., Tsaneva-Atanasova, K. & Danon, L., 10/03/2021, In: BMJ. 372, 10 p., 579.

    Research output: Contribution to journalJournal articlepeer-review

  6. Published

    Age-specific social mixing of school-aged children in a US setting using proximity detecting sensors and contact surveys

    Grantz, K. H., Cummings, D. A. T., Zimmer, S., Vukotich Jr, C., Galloway, D., Schweizer, M. L., Guclu, H., Cousins, J., Lingle, C., Yearwood, G. M. H., Li, K., Calderone, P., Noble, E., Gao, H., Rainey, J., Uzicanin, A. & Read, J. M., 27/01/2021, In: Scientific Reports. 11, 1, 11 p., 2319.

    Research output: Contribution to journalJournal articlepeer-review

  7. 2020
  8. Published

    Strong spatial embedding of social networks generates nonstandard epidemic dynamics independent of degree distribution and clustering

    Haw, D. J., Pung, R., Read, J. M. & Riley, S., 22/09/2020, In: Proceedings of the National Academy of Sciences of the United States of America. 117, 38, p. 23636-23642 7 p.

    Research output: Contribution to journalJournal articlepeer-review

  9. Published

    Efficacy of contact tracing for the containment of the 2019 novel coronavirus (COVID-19)

    Keeling, M. J., Hollingsworth, T. D. & Read, J. M., 8/09/2020, In: Journal of Epidemiology and Community Health. 74, 10, p. 861-866 6 p.

    Research output: Contribution to journalJournal articlepeer-review

  10. Published

    The potential impact of COVID-19-related disruption on tuberculosis burden

    CMMID COVID-19 Working Group, 13/08/2020, In: European Respiratory Journal. 56, 2, 4 p., 2001718.

    Research output: Contribution to journalJournal articlepeer-review

  11. Published

    Intestinal Perforations Associated With a High Mortality and Frequent Complications During an Epidemic of Multidrug-resistant Typhoid Fever in Blantyre, Malawi

    Olgemoeller, F., Waluza, J. J., Zeka, D., Gauld, J. S., Diggle, P. J., Read, J. M., Edwards, T., Msefula, C. L., Chirambo, A., Gordon, M. A., Thomson, E., Heyderman, R. S., Borgstein, E. & Feasey, N. A., 29/07/2020, In: Clinical Infectious Diseases. 71, Supplement 2, p. S96-S101 6 p.

    Research output: Contribution to journalJournal articlepeer-review

  12. Published

    Life course exposures continually shape antibody profiles and risk of seroconversion to influenza

    Yang, B., Lessler, J., Zhu, H., Jiang, C. Q., Read, J. M., Hay, J. A., Kwok, K. O., Shen, R., Guan, Y., Riley, S. & Cummings, D. A. T., 23/07/2020, In: PLoS Pathogens. 16, 7, e1008635.

    Research output: Contribution to journalJournal articlepeer-review

  13. Published

    Features of 20 133 UK patients in hospital with covid-19 using the ISARIC WHO Clinical Characterisation Protocol: Prospective observational cohort study

    Docherty, A. B., Harrison, E. M., Green, C. A., Hardwick, H. E., Pius, R., Norman, L., Holden, K. A., Read, J. M., Dondelinger, F., Carson, G., Merson, L., Lee, J., Plotkin, D., Sigfrid, L., Halpin, S., Jackson, C., Gamble, C., Horby, P. W., Nguyen-Van-Tam, J. S., Ho, A. & 5 others, Russell, C. D., Dunning, J., Openshaw, P. J. M., Baillie, J. K. & Semple, M. G., 22/05/2020, In: BMJ. 369, 12 p., m1985.

    Research output: Contribution to journalJournal articlepeer-review

  14. Published

    Domestic river water use and risk of typhoid fever: results from a case-control study in Blantyre, Malawi

    Gauld, J. S., Olgemoeller, F., Nkhata, R., Li, C., Chirambo, A., Morse, T., Gordon, M. A., Read, J. M., Heyderman, R. S., Kennedy, N., Diggle, P. J. & Feasey, N. A., 1/04/2020, In: Clinical Infectious Diseases. 70, 7, p. 1278-1284 7 p.

    Research output: Contribution to journalJournal articlepeer-review

  15. Published

    Coordinating the real‐time use of global influenza activity data for better public health planning

    Biggerstaff, M., Dahlgren, F., Fitzner, J., George, D., Hammond, A., Hall, I., Haw, D., Imai, N., Johansson, M., Kramer, S., McCaw, J., Moss, R., Pebody, R., Read, J., Reed, C., Reich, N., Riley, S., Vandemaele, K., Viboud, C. & Wu, J., 1/03/2020, In: Influenza and Other Respiratory Viruses. 14, 2, p. 105-110 6 p.

    Research output: Contribution to journalJournal articlepeer-review

  16. Published

    Childhood malaria case incidence in Malawi between 2004 and 2017: Spatio-temporal modelling of climate and non-climate factors

    Chirombo, J., Ceccato, P., Lowe, R., Terlouw, D. J., Thomson, M., Gumbo, A., Diggle, P. & Read, J., 6/01/2020, In: Malaria Journal. 19, 13 p., 5.

    Research output: Contribution to journalJournal articlepeer-review

  17. 2019
  18. Published

    Reduction in hospitalisations for acute gastroenteritis-associated childhood seizures since introduction of rotavirus vaccination: A time-series and change-point analysis of hospital admissions in England

    Hungerford, D. J., French, N., Iturriza-Gómara, M., Read, J. M., Cunliffe, N. A. & Vivancos, R., 1/11/2019, In: Journal of Epidemiology and Community Health. p. 1020-1025 6 p.

    Research output: Contribution to journalJournal articlepeer-review

  19. Published

    Patterns of human social contact and contact with animals in Shanghai, China

    Zhang, J., Klepac, P., Read, J., Rosello, A., Wang, X., Lai, S., Li, M., Song, Y., Wei, Q., Jiang, H., Yang, J., Lynn, H., Flasche, S., Jit, M. & Yu, H., 22/10/2019, In: Scientific Reports. 9, 11 p., 15141.

    Research output: Contribution to journalJournal articlepeer-review

  20. Published

    The use and reporting of airline passenger data for infectious disease modelling: a systematic review

    Meslé, M. MI., Hall, I. M., Christley, R. M., Leach, S. & Read, J., 1/08/2019, In: Eurosurveillance. 24, 31, 18 p.

    Research output: Contribution to journalJournal articlepeer-review

  21. Published

    Differential mobility and local variation in infection attack rate

    Haw, D. J., Cummings, D. A. T., Lessler, J., Salje, H., Read, J. M. & Riley, S., 22/01/2019, In: PLoS Computational Biology. 15, 1, 16 p., e1006600.

    Research output: Contribution to journalJournal articlepeer-review

  22. 2018
  23. Published

    Who interacts with whom? Social mixing insights from a rural population in India

    Kumar, S., Gosain, M., Sharma, H., Swetts, E., Amarchand, R., Kumar, R., Lafond, K. E., Dawood, F. S., Jain, S., Widdowson, M-A., Read, J. M. & Krishnan, A., 21/12/2018, In: PLoS ONE. 13, 12, 17 p., e0209039.

    Research output: Contribution to journalJournal articlepeer-review

  24. Published

    Pneumococcal carriage in households in Karonga District, Malawi, before and after introduction of 13-valent pneumococcal conjugate vaccination

    Heinsbroek, E., Tafatatha, T., Phiri, A., Swarthout, T. D., Alaerts, M., Crampin, A. C., Chisambo, C., Mwiba, O., Read, J. M. & French, N., 19/11/2018, In: Vaccine. 36, 48, p. 7369-7376 8 p.

    Research output: Contribution to journalJournal articlepeer-review

  25. Published

    Mitigating bias in observational vaccine effectiveness studies using simulated comparator populations: Application to rotavirus vaccination in the UK

    Hungerford, D., Vivancos, R., Read, J. M., Bonnett, L. J., Bar-Zeev, N., Iturriza-Gómara, M., Cunliffe, N. A. & French, N., 29/10/2018, In: Vaccine. 36, 45, p. 6674-6682 9 p.

    Research output: Contribution to journalJournal articlepeer-review

  26. Published

    Prevalence and risk factors of community-associated methicillin-resistant carriage in Asia-Pacific region from 2000 to 2016: a systematic review and meta-analysis

    Wong, J. W., Ip, M., Tang, A., Wei, V. W., Wong, S. Y., Riley, S., Read, J. M. & Kwok, K. O., 12/10/2018, In: Clinical Epidemiology. 10, p. 1489-1501 13 p.

    Research output: Contribution to journalReview articlepeer-review

  27. Published

    Primary Care Influenza-like Illness Surveillance in Ho Chi Minh City, Vietnam 2013-2015

    Todd, S., Huong, N. T. C., Thanh, N. T. L., Vy, N. H. T., Hung, N. T., Thao, T. T. N., Phuong, H. T., van Doorn, H. R., Hang, V. T. T., Chau, N. V. V., Read, J. M., Lalloo, D. G. & Boni, M. F., 09/2018, In: Influenza and Other Respiratory Viruses. 12, 5, p. 623-631 9 p.

    Research output: Contribution to journalJournal articlepeer-review

  28. Published

    Case series of severe neurologic sequelae of ebola virus disease during epidemic, Sierra Leone

    Howlett, P. J., Walder, A. R., Lisk, D. R., Fitzgerald, F., Sevalie, S., Lado, M., N’Jai, A., Brown, C. S., Sahr, F., Sesay, F., Read, J. M., Steptoe, P. J., Beare, N. A. V., Dwivedi, R., Solbrig, M., Deen, G. F., Solomon, T., Semple, M. G. & Scott, J. T., 24/08/2018, In: Emerging Infectious Diseases. 24, 8, p. 1412-1421 10 p.

    Research output: Contribution to journalJournal articlepeer-review

  29. Published

    Prevalence and risk factors of community-associated methicillin-resistant Staphylococcus aureus (CA-MRSA) carriage in Asia-Pacific region from 2000 to 2016: A systematic review and meta-analysis

    Wong, J., Ip, M., Tang, A., Wei, V., Wong, S., Riley, S., Read, J. M. & Kwok, K. O., 08/2018, In: International Journal of Infectious Diseases. 73, Suppl., p. 135-136 2 p.

    Research output: Contribution to journalMeeting abstractpeer-review

  30. Published

    A systematic review of transmission dynamic studies of methicillin-resistant Staphylococcus aureus in non-hospital residential facilities

    Kwok, K. O., Read, J. M., Tang, A., Chen, H., Riley, S. & Kam, K. M., 18/04/2018, In: BMC Infectious Diseases. 18, 1, 13 p., 188.

    Research output: Contribution to journalJournal articlepeer-review

  31. Published

    Rotavirus vaccine impact and socioeconomic deprivation: an interrupted time-series analysis of gastrointestinal disease outcomes across primary and secondary care in the UK

    Hungerford, D., Vivancos, R., Read, J. M., Iturriza-Gόmara, M., French, N. & Cunliffe, N. A., 29/01/2018, In: BMC Medicine. 16, 1, 10 p.

    Research output: Contribution to journalJournal articlepeer-review

  32. Published

    Temporal variation of human encounters and the number of locations in which they occur: A longitudinal study of Hong Kong residents

    Kwok, K. O., Cowling, B., Wei, V., Riley, S. & Read, J. M., 01/2018, In: Interface. 15, 138, 10 p., 20170838.

    Research output: Contribution to journalJournal articlepeer-review

  33. 2017
  34. Published

    Prospective cohort study to investigate the burden and transmission of acute gastroenteritis in care homes: a study protocol

    Inns, T., Pulawska-Czub, A., Harris, J. P., Vivancos, R., Read, J. M., Beeching, N. J., Allen, D. J., Iturriza-Gomara, M. & O'Brien, S. J., 1/11/2017, In: BMJ Open. 7, 11, 7 p., e018867.

    Research output: Contribution to journalJournal articlepeer-review

  35. Published

    Cohort Profile: a study of influenza immunity in the urban and rural Guangzhou region of China: the Fluscape Study

    Jiang, C. Q., Lessler, J., Kim, L., Kwok, K. O., Read, J. M., Wang, S., Tan, L., Hast, M., Zhu, H., Guan, Y., Riley, S. & Cummings, D. A. T., 04/2017, In: International Journal of Epidemiology. 46, 2, 7 p., e16.

    Research output: Contribution to journalJournal articlepeer-review

  36. 2016
  37. Published

    A comparison of hemagglutination inhibition and neutralization assays for characterizing immunity to seasonal influenza A

    Truelove, S., Zhu, H., Lessler, J., Riley, S., Read, J. M., Wang, S., Kwok, K. O., Guan, Y., Jiang, C. Q. & Cummings, D. A. T., 11/2016, In: Influenza and Other Respiratory Viruses. 10, 6, p. 518-524 7 p.

    Research output: Contribution to journalJournal articlepeer-review

  38. Published

    Early impact of rotavirus vaccination in a large paediatric hospital in the UK

    Hungerford, D., Read, J. M., Cooke, R. P. D., Vivancos, R., Iturriza-Gómara, M., Allen, D. J., French, N. & Cunliffe, N., 06/2016, In: Journal of Hospital Infection. 93, 2, p. 117-120 4 p.

    Research output: Contribution to journalJournal articlepeer-review

  39. Published

    Design of a study to examine contact mixing and acute respiratory infection in Ballabgarh, Haryana

    Kumar, S., Amarchand, R., Gosain, M., Sharma, H., Dawood, F., Jain, S., Lafond, K., Widdowson, M-A., Read, J. M. & Krishnan, A., 04/2016, In: International Journal of Infectious Diseases. 45, Suppl. 1, p. 282 1 p.

    Research output: Contribution to journalMeeting abstract

  40. Published

    Social contact networks and mixing among students in K-12 schools in Pittsburgh, PA

    Guclu, H., Read, J. M., Vukotich, C. J., Galloway, D. D., Gao, H., Rainey, J. J., Uzicanin, A., Zimmer, S. M. & Cummings, D. A. T., 15/03/2016, In: PLoS ONE. 11, 3, 19 p., e0151139.

    Research output: Contribution to journalJournal articlepeer-review

  41. Published

    In-season and out-of-season variation of rotavirus genotype distribution and age of infection across 12 European countries before the introduction of routine vaccination, 2007/08 to 2012/13

    Hungerford, D., Vivancos, R., Read, J. M., Pitzer, V. E., Cunliffe, N., French, N., Iturriza-Gómara, M. & EuroRotaNet network members, 14/01/2016, In: Eurosurveillance. 21, 2, 12 p., 5.

    Research output: Contribution to journalJournal articlepeer-review

  42. Published

    Pneumococcal acquisition among infants exposed to HIV in rural Malawi: a longitudinal household study

    Heinsbroek, E., Tafatatha, T., Chisambo, C., Phiri, A., Mwiba, O., Ngwira, B., Crampin, A. C., Read, J. M. & French, N., 1/01/2016, In: American Journal of Epidemiology. 183, 1, p. 70-78 9 p.

    Research output: Contribution to journalJournal articlepeer-review

  43. 2015
  44. Published

    Enhancing disease surveillance with novel data streams: challenges and opportunities

    Althouse, B. M., Scarpino, S. V., Meyers, L. A., Ayers, J. W., Bargsten, M., Baumbach, J., Brownstein, J. S., Castro, L., Clapham, H., Cummings, D. A. T., Del Valle, S., Eubank, S., Fairchild, G., Finelli, L., Generous, N., George, D., Harper, D. R., Hébert-Dufresne, L., Johansson, M. A., Konty, K. & 16 others, Lipsitch, M., Milinovich, G., Miller, J. D., Nsoesie, E. O., Olson, D. R., Paul, M., Polgreen, P. M., Priedhorsky, R., Read, J. M., Rodríguez-Barraquer, I., Smith, D. J., Stefansen, C., Swerdlow, D. L., Thompson, D., Vespignani, A. & Wesolowski, A., 1/12/2015, In: EPJ Data Science. 4, 1, p. 1-8 8 p., 17.

    Research output: Contribution to journalJournal articlepeer-review

  45. Published

    Testing the hypothesis of preferential attachment in social network formation

    House, T., Read, J. M., Danon, L. & Keeling, M. J., 12/2015, In: EPJ Data Science. 4, 1, 13 p., 13.

    Research output: Contribution to journalJournal articlepeer-review

  46. Published

    Persisting high prevalence of pneumococcal carriage among HIV-infected adults receiving antiretroviral therapy in Malawi: a cohort study

    Heinsbroek, E., Tafatatha, T., Phiri, A., Ngwira, B., Crampin, A. C., Read, J. M. & French, N., 10/09/2015, In: AIDS. 29, 14, p. 1837-1844 8 p.

    Research output: Contribution to journalJournal articlepeer-review

  47. Published

    Estimating the Life Course of Influenza A (H3N2) Antibody Responses from Cross-Sectional Data

    Kucharski, A. J., Lessler, J., Read, J. M., Zhu, H., Jiang, C. Q., Guan, Y., Cummings, D. A. T. & Riley, S., 3/03/2015, In: Plos Biology. 13, 3, 16 p., 1002082.

    Research output: Contribution to journalJournal articlepeer-review

  48. Published

    Effectiveness of screening for Ebola at airports

    Read, J., Diggle, P. J., Chirombo, J., Solomon, T. & Baylis, M., 3/01/2015, In: Lancet. 385, 9962, p. 23-24 2 p.

    Research output: Contribution to journalJournal articlepeer-review

  49. 2014
  50. Published

    European red squirrel population dynamics driven by squirrelpox at a gray squirrel invasion interface

    Chantrey, J., Dale, T. D., Read, J. M., White, S., Whitfield, F., Jones, D., McInnes, C. J. & Begon, M., 10/2014, In: Ecology and Evolution. 4, 19, p. 3788-3799 12 p.

    Research output: Contribution to journalJournal articlepeer-review

  51. Published

    Social contacts and the locations in which they occur as risk factors for influenza infection

    Kwok, K. O., Cowling, B. J., Wei, V. W. I., Wu, K. M., Read, J. M., Lessler, J., Cummings, D. A., Peiris, J. S. M. & Riley, S., 22/08/2014, In: Proceedings of the Royal Society B: Biological Sciences. 281, 1789, 9 p., 20140709.

    Research output: Contribution to journalJournal articlepeer-review

  52. Published

    Risk factors for UK Plasmodium falciparum cases

    Pinsent, A., Read, J. M., Griffin, J. T., Smith, V., Gething, P. W., Ghani, A. C., Pasvol, G. & Hollingsworth, T. D., 4/08/2014, In: Malaria Journal. 13, 8 p., 298.

    Research output: Contribution to journalJournal articlepeer-review

  53. Published

    The Contribution of Social Behaviour to the Transmission of Influenza A in a Human Population

    Kucharski, A. J., Kwok, K. O., Wei, V. W. I., Cowling, B. J., Read, J. M., Lessler, J., Cummings, D. A. & Riley, S., 26/06/2014, In: PLoS Pathogens. 10, 6, 8 p., 1004206.

    Research output: Contribution to journalJournal articlepeer-review

  54. Published

    Social mixing patterns in rural and urban areas of southern China

    Read, J. M., Lessler, J., Riley, S., Wang, S., Tan, L. J., Kwok, K. O., Guan, Y., Jiang, C. Q. & Cummings, D. A. T., 22/06/2014, In: Proceedings of the Royal Society B: Biological Sciences. 281, 1785, 8 p., 20140268.

    Research output: Contribution to journalJournal articlepeer-review

  55. Published

    The spatiotemporal association of non-prescription retail sales with cases during the 2009 influenza pandemic in Great Britain

    Todd, S., Diggle, P. J., White, P. J., Fearne, A. & Read, J., 2014, In: BMJ Open. 4, 4, p. 1-9 9 p., e004869.

    Research output: Contribution to journalJournal articlepeer-review

  56. 2013
  57. Published

    Social encounter networks: characterizing Great Britain

    Danon, L., Read, J. M., House, T. A., Vernon, M. C. & Keeling, M. J., 22/08/2013, In: Proceedings of the Royal Society B: Biological Sciences. 280, 1765, 10 p., 20131037.

    Research output: Contribution to journalJournal articlepeer-review

  58. 2012
  59. Published

    Close encounters of the infectious kind: methods to measure social mixing behaviour

    Read, J. M., Edmunds, W. J., Riley, S., Lessler, J. & Cummings, D. A. T., 12/2012, In: Epidemiology and Infection. 140, 12, p. 2117-2130 14 p.

    Research output: Contribution to journalLiterature reviewpeer-review

  60. Published

    Social encounter networks: collective properties and disease transmission

    Danon, L., House, T. A., Read, J. M. & Keeling, M. J., 7/11/2012, In: Interface. 9, 76, p. 2826-2833 8 p.

    Research output: Contribution to journalJournal articlepeer-review

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