Epidemiology & Demography

Bio

James trained in Zoology (BSc), then a PhD in virus epidemiology (Imperial College), followed by post-docs at Imperial College, Oxford and Warwick. Although Warwick remains his home institution where he is a Professor of Infectious Disease Epidemiology, James has been seconded to KEMRI-Wellcome Trust Research Programme, Kilifi since 2001. His principal interest over the last two decades has been in the transmission dynamics and control of human viral pathogens, primarily respiratory syncytial virus (RSV). James leads the Virus Epidemiology and Control Research Group, which is inter-disciplinary using molecular, phylogenetic, immunological, mathematical, statistical and field approaches to address key questions relating to respiratory and enteric virus persistence, transmission, and intervention. He has been supported by Wellcome Trust Research Leave, Programme Grant and Senior Investigator Awards.

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Current Work

Recent work has focused on the integration of epidemiological and genomic data to infer transmission pathways at different scales of interest from the household to countrywide. This has led to a NIHR Global Health Research Project GeMVi (on the application of genomics and modelling to the control of virus pathogens in East Africa). The COVID-19 pandemic led to redeployment of the diagnostics, genomics, modelling and community epidemiology platforms to SARS-CoV-2, with Emergency Funding from FCDO/Wellcome and NIHR.

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Recent publications

A computational framework for modelling infectious disease policy based on age and household structure with applications to the COVID-19 pandemic.
Hilton, J., Riley, H., Pellis, L., Aziza, R., Brand, S. P. C., Kombe, I. K., Ojal, J., Parisi, A., Keeling, M. J., Nokes, D. J., Manson-Sawko, R., House, T.
PLoS Comput Biol, (2022). 18:e1010390

The evolving SARS-CoV-2 epidemic in Africa: Insights from rapidly expanding genomic surveillance.
Tegally, H., San, J. E., Cotten, M., Moir, M., Tegomoh, B., Mboowa, G., Martin, D. P., Baxter, C., Lambisia, A. W., Diallo, A., Amoako, D. G., Diagne, M. M., Sisay, A., Zekri, A. N., Gueye, A. S., Sangare, A. K., Ouedraogo, A. S., Sow, A., Musa, A. O., Sesay, A. K., Abias, A. G., Elzagheid, A. I., Lagare, A., Kemi, A. S., Abar, A. E., Johnson, A. A., Fowotade, A., Oluwapelumi, A. O., Amuri, A. A., Juru, A., Kandeil, A., Mostafa, A., Rebai, A., Sayed, A., Kazeem, A., Balde, A., Christoffels, A., Trotter, A. J., Campbell, A., Keita, A. K., Kone, A., Bouzid, A., Souissi, A., Agweyu, A., Naguib, A., Gutierrez, A. V., Nkeshimana, A., Page, A. J., Yadouleton, A., Vinze, A., Happi, A. N., Chouikha, A., Iranzadeh, A., Maharaj, A., Batchi-Bouyou, A. L., Ismail, A., Sylverken, A. A., Goba, A., Femi, A., Sijuwola, A. E., Marycelin, B., Salako, B. L., Oderinde, B. S., Bolajoko, B., Diarra, B., Herring, B. L., Tsofa, B., Lekana-Douki, B., Mvula, B., Njanpop-Lafourcade, B. M., Marondera, B. T., Khaireh, B. A., Kouriba, B., Adu, B., Pool, B., McInnis, B., Brook, C., Williamson, C., Nduwimana, C., Anscombe, C., Pratt, C. B., Scheepers, C., Akoua-Koffi, C. G., Agoti, C. N., Mapanguy, C. M., Loucoubar, C., Onwuamah, C. K., Ihekweazu, C., Malaka, C. N., Peyrefitte, C., Grace, C., Omoruyi, C. E., Rafai, C. D., Morang'a, C. M., Erameh, C., Lule, D. B., Bridges, D. J., Mukadi-Bamuleka, D., Park, D., Rasmussen, D. A., Baker, D., Nokes, D. J., Ssemwanga, D., Tshiabuila, D., Amuzu, D. S. Y., Goedhals, D., Grant, D. S., Omuoyo, D. O., Maruapula, D., Wanjohi, D. W., Foster-Nyarko, E., Lusamaki, E. K., Simulundu, E., Ong'era, E. M., Ngabana, E. N., Abworo, E. O., Otieno, E., Shumba, E., Barasa, E., Ahmed, E. B., Ahmed, E. A., Lokilo, E., Mukantwari, E., Philomena, E., Belarbi, E., Simon-Loriere, E., Anoh, E. A., Manuel, E., Leendertz, F., Taweh, F. M., Wasfi, F., Abdelmoula, F., Takawira, F. T., Derrar, F., Ajogbasile, F. V., Treurnicht, F., Onikepe, F., Ntoumi, F., Muyembe, F. M., Ragomzingba, F. E. Z., Dratibi, F. A., Iyanu, F. A., Mbunsu, G. K., Thilliez, G., Kay, G. L., Akpede, G. O., van Zyl, G. U., Awandare, G. A., Kpeli, G. S., Schubert, G., Maphalala, G. P., Ranaivoson, H. C., Omunakwe, H. E., Onywera, H., Abe, H., Karray, H., Nansumba, H., Triki, H., Kadjo, H. A. A., Elgahzaly, H., Gumbo, H., Mathieu, H., Kavunga-Membo, H., Smeti, I., Olawoye, I. B., Adetifa, I. M. O., Odia, I., Ben Boubaker, I. B., Mohammad, I. A., Ssewanyana, I., Wurie, I., Konstantinus, I. S., Halatoko, J. W. A., Ayei, J., Sonoo, J., Makangara, J. C., Tamfum, J. M., Heraud, J. M., Shaffer, J. G., Giandhari, J., Musyoki, J., Nkurunziza, J., Uwanibe, J. N., Bhiman, J. N., Yasuda, J., Morais, J., Kiconco, J., Sandi, J. D., Huddleston, J., Odoom, J. K., Morobe, J. M., Gyapong, J. O., Kayiwa, J. T., Okolie, J. C., Xavier, J. S., Gyamfi, J., Wamala, J. F., Bonney, J. H. K., Nyandwi, J., Everatt, J., Nakaseegu, J., Ngoi, J. M., Namulondo, J., Oguzie, J. U., Andeko, J. C., Lutwama, J. J., Mogga, J. J. H., O'Grady, J., Siddle, K. J., Victoir, K., Adeyemi, K. T., Tumedi, K. A., Carvalho, K. S., Mohammed, K. S., Dellagi, K., Musonda, K. G., Duedu, K. O., Fki-Berrajah, L., Singh, L., Kepler, L. M., Biscornet, L., de Oliveira Martins, L., Chabuka, L., Olubayo, L., Ojok, L. D., Deng, L. L., Ochola-Oyier, L. I., Tyers, L., Mine, M., Ramuth, M., Mastouri, M., ElHefnawi, M., Mbanne, M., Matsheka, M. I., Kebabonye, M., Diop, M., Momoh, M., Lima Mendonca, M. D. L., Venter, M., Paye, M. F., Faye, M., Nyaga, M. M., Mareka, M., Damaris, M. M., Mburu, M. W., Mpina, M. G., Owusu, M., Wiley, M. R., Tatfeng, M. Y., Ayekaba, M. O., Abouelhoda, M., Beloufa, M. A., Seadawy, M. G., Khalifa, M. K., Matobo, M. M., Kane, M., Salou, M., Mbulawa, M. B., Mwenda, M., Allam, M., Phan, M. V. T., Abid, N., Rujeni, N., Abuzaid, N., Ismael, N., Elguindy, N., Top, N. M., Dia, N., Mabunda, N., Hsiao, N. Y., Silochi, N. B., Francisco, N. M., Saasa, N., Bbosa, N., Murunga, N., Gumede, N., Wolter, N., Sitharam, N., Ndodo, N., Ajayi, N. A., Tordo, N., Mbhele, N., Razanajatovo, N. H., Iguosadolo, N., Mba, N., Kingsley, O. C., Sylvanus, O., Femi, O., Adewumi, O. M., Testimony, O., Ogunsanya, O. A., Fakayode, O., Ogah, O. E., Oludayo, O. E., Faye, O., Smith-Lawrence, P., Ondoa, P., Combe, P., Nabisubi, P., Semanda, P., Oluniyi, P. E., Arnaldo, P., Quashie, P. K., Okokhere, P. O., Bejon, P., Dussart, P., Bester, P. A., Mbala, P. K., Kaleebu, P., Abechi, P., El-Shesheny, R., Joseph, R., Aziz, R. K., Essomba, R. G., Ayivor-Djanie, R., Njouom, R., Phillips, R. O., Gorman, R., Kingsley, R. A., Neto Rodrigues, R. M. D. E. S. A., Audu, R. A., Carr, R. A. A., Gargouri, S., Masmoudi, S., Bootsma, S., Sankhe, S., Mohamed, S. I., Femi, S., Mhalla, S., Hosch, S., Kassim, S. K., Metha, S., Trabelsi, S., Agwa, S. H., Mwangi, S. W., Doumbia, S., Makiala-Mandanda, S., Aryeetey, S., Ahmed, S. S., Ahmed, S. M., Elhamoumi, S., Moyo, S., Lutucuta, S., Gaseitsiwe, S., Jalloh, S., Andriamandimby, S. F., Oguntope, S., Grayo, S., Lekana-Douki, S., Prosolek, S., Ouangraoua, S., van Wyk, S., Schaffner, S. F., Kanyerezi, S., Ahuka-Mundeke, S., Rudder, S., Pillay, S., Nabadda, S., Behillil, S., Budiaki, S. L., van der Werf, S., Mashe, T., Mohale, T., Le-Viet, T., Velavan, T. P., Schindler, T., Maponga, T. G., Bedford, T., Anyaneji, U. J., Chinedu, U., Ramphal, U., George, U. E., Enouf, V., Nene, V., Gorova, V., Roshdy, W. H., Karim, W. A., Ampofo, W. K., Preiser, W., Choga, W. T., Ahmed, Y. A., Ramphal, Y., Bediako, Y., Naidoo, Y., Butera, Y., de Laurent, Z. R., Africa Pathogen Genomics, Initiative., Ouma, A. E. O., von Gottberg, A., Githinji, G., Moeti, M., Tomori, O., Sabeti, P. C., Sall, A. A., Oyola, S. O., Tebeje, Y. K., Tessema, S. K., de Oliveira, T., Happi, C., Lessells, R., Nkengasong, J., Wilkinson, E.
Science, (2022). :eabq5358

Epidemiological impact and cost-effectiveness analysis of COVID-19 vaccination in Kenya.
Orangi, S., Ojal, J., Brand, S. P., Orlendo, C., Kairu, A., Aziza, R., Ogero, M., Agweyu, A., Warimwe, G. M., Uyoga, S., Otieno, E., Ochola-Oyier, L. I., Agoti, C. N., Kasera, K., Amoth, P., Mwangangi, M., Aman, R., Ng'ang'a, W., Adetifa, I. M., Scott, J. A. G., Bejon, P., Keeling, M. J., Flasche, S., Nokes, D. J., Barasa, E.
BMJ Glob Health, (2022). 7:e009430

Differences in epidemiology of enteropathogens in children pre- and post-rotavirus vaccine introduction in Kilifi, coastal Kenya.
Agoti, C. N., Curran, M. D., Murunga, N., Ngari, M., Muthumbi, E., Lambisia, A. W., Frost, S. D. W., Blacklaws, B. A., Nokes, D. J., Drumright, L. N.
Gut Pathog, (2022). 14:32

Genomic Epidemiology of SARS-CoV-2 in Seychelles, 2020-2021.
Morobe, J. M., Pool, B., Marie, L., Didon, D., Lambisia, A. W., Makori, T., Mohammed, K. S., de Laurent, Z. R., Ndwiga, L., Mburu, M. W., Moraa, E., Murunga, N., Musyoki, J., Mwacharo, J., Nyamako, L., Riako, D., Ephnatus, P., Gambo, F., Naimani, J., Namulondo, J., Tembo, S. Z., Ogendi, E., Balde, T., Dratibi, F. A., Yahaya, A. A., Gumede, N., Achilla, R. A., Borus, P. K., Wanjohi, D. W., Tessema, S. K., Mwangangi, J., Bejon, P., Nokes, D. J., Ochola-Oyier, L. I., Githinji, G., Biscornet, L., Agoti, C. N.
Viruses, (2022). 14:1318