Professor Anthony Scott


of Vaccine Epidemiology,Director of the Vaccine Centre,Director HPRU in Immunisation


Keppel Street
United Kingdom

+44 (0) 207 927 2264

I trained in clinical infectious diseases and epidemiology before moving to the KEMRI-Wellcome Trust Research Programme in Kilifi, Kenya in 1993. I have spent most of the last 20 years in Kenya, studying pneumococcal disease and pneumonia in children and adults, and vaccines to prevent them. I am a Wellcome Trust Senior Research Fellow in Clinical Science and I work in clinical paediatrics in Kilifi. I joined the School in 2013 after 15 years based at Oxford University.  In addition to my research I have developed a surveillance network for invasive bacterial diseases in East Africa (Netspear) and I co-direct the Kilifi Health and Demographic Surveillance System. I work frequently with WHO and GAVI on vaccine preventable diseases and with the Ministry of Health in Kenya on the evaluation of pneumococcal vaccine.  In the UK I am a member of the Joint Committee on Vaccination and Immunisation (JCVI) and Director of the the NIHR Health Protection Research Unit in Immunisation at LSHTM which involves a portfolio of work on disease burden, vaccine effectiveness, vaccine safety, modelling, cost-effectiveness, vaccine acceptability and policy implementation in collaboration with Public Health England


Department of Infectious Disease Epidemiology
Faculty of Epidemiology and Population Health


Vaccine Centre


I am co-director of the short course on the Epidemiological Evaluation of Vaccines and teach on the Intensive Course on Epidemiology and Medical Statistics, the MSc Epidemiology and the Diploma course in Tropical Medicine & Hygiene.


My main research interests are in child health and vaccines in East Africa. I run the Pneumcoccal Conjugate Vaccine Impact Study, an effectiveness evaluation of vaccine introduction in Kenya, and a series of associated studies of transmission and modelling of pneumococcal disease, evaluation of vaccine safety, and pathogen population structure. I work with the Program for Appropriate Technology in Health (PATH) on the clinical development of a killed whole cell pneumococcal vaccine and with the International Vaccine Access Center at Johns Hopkins School of Public Health on a multi-centre study of the aetiology of pneumonia (PERCH - Pneumonia Etiology Research for Child Health) in developing countries. More broadly, I study the epidemiology of invasive bacterial infections in children and the way that they shape childhood mortality. I am interested in how synthesis of epidemiolgocial evidence supports effective vaccine policy in the UK and how systems for synthesising and modelling epidemiological evidence can advance vaccine policy in low-income countries.

Research Area
Child health
Clinical databases
Economic evaluation
Global Health
Impact evaluation
Disease and Health Conditions
Infectious disease
Respiratory disease
Sub-Saharan Africa (developing only)

Selected Publications

Effect of Haemophilus influenzae type b vaccination without a booster dose on invasive H influenzae type b disease, nasopharyngeal carriage, and population immunity in Kilifi, Kenya: a 15-year regional surveillance study.
Hammitt, L.L.; Crane, R.J.; Karani, A.; Mutuku, A.; Morpeth, S.C.; Burbidge, P.; Goldblatt, D.; Kamau, T.; Sharif, S.; Mturi, N.; Scott, J.A.;
Lancet Glob Health
The Malaria-High Blood Pressure Hypothesis.
Etyang, A.O.; Smeeth, L.; Cruickshank, J.K.; Scott, J.A.;
Circ Res
Use of vaccines as probes to define disease burden.
Feikin, D.R.; Scott, J.A.; Gessner, B.D.;
Population effect of 10-valent pneumococcal conjugate vaccine on nasopharyngeal carriage of Streptococcus pneumoniae and non-typeable Haemophilus influenzae in Kilifi, Kenya: findings from cross-sectional carriage studies.
Hammitt, L.L. ; Akech, D.O. ; Morpeth, S.C. ; Karani, A. ; Kihuha, N. ; Nyongesa, S. ; Bwanaali, T. ; Mumbo, E. ; Kamau, T. ; Sharif, S.K. ; Scott, J.A. ;
Lancet Glob Health
Estimating rates of carriage acquisition and clearance and competitive ability for pneumococcal serotypes in Kenya with a Markov transition model.
Lipsitch, M. ; Abdullahi, O. ; DʼAmour, A. ; Xie, W. ; Weinberger, D.M. ; Tchetgen Tchetgen, E. ; Scott, J.A. ;
Relation between falciparum malaria and bacteraemia in Kenyan children: a population-based, case-control study and a longitudinal study.
Scott, J.A. ; Berkley, J.A. ; Mwangi, I. ; Ochola, L. ; Uyoga, S. ; Macharia, A. ; Ndila, C. ; Lowe, B.S. ; Mwarumba, S. ; Bauni, E. ; Marsh, K. ; Williams, T.N. ;
Risk and causes of paediatric hospital-acquired bacteraemia in Kilifi District Hospital, Kenya: a prospective cohort study.
Aiken, A.M. ; Mturi, N. ; Njuguna, P. ; Mohammed, S. ; Berkley, J.A. ; Mwangi, I. ; Mwarumba, S. ; Kitsao, B.S. ; Lowe, B.S. ; Morpeth, S.C. ; Hall, A.J. ; Khandawalla, I. ; Scott, J.A. ; Kilifi Bacteraemia Surveillance Group, . ; COLLABORATORS;Ahmed, I. ; Akech, S. ; Makazi, A.B. ; Hajj, M.B. ; Brent, A. ; Chesaro, C. ; Dayo, H. ; Idro, R. ; Kosgei, P. ; Maitland, K. ; Marsh, K. ; Mwalekwa, L. ; Mwaringa, S. ; Newton, C. ; Ngama, M. ; Pamba, A. ; Peshu, N. ; Seale, A. ; Talbert, A. ; Williams, T. ;
Bacteraemia in Kenyan children with sickle-cell anaemia: a retrospective cohort and case-control study.
Williams, T.N. ; Uyoga, S. ; Macharia, A. ; Ndila, C. ; McAuley, C.F. ; Opi, D.H. ; Mwarumba, S. ; Makani, J. ; Komba, A. ; Ndiritu, M.N. ; Sharif, S.K. ; Marsh, K. ; Berkley, J.A. ; Scott, J.A. ;
See all Professor Anthony Scott's Publications