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Charles Nyaigoti Agoti

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Principal Investigator/ Group Leader

KEMRI-Wellcome Trust Research Programme

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Research Interests

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Professors in Epidemiology

Recent Grants

Grant: Open

Rates, determinants, and transmissibility of respiratory virus re-infections

Open Date: 2023-02-01

Close Date: 2031-01-01

Grant: Close

Investigating whole genome sequence variation of enteric adenovirus in Kenya and England and immunological consequences of viral variation

Open Date: 2022-12-01

Close Date: 2024-06-01

Grant: Close

Investigation of pre-existing immunity to coronaviruses; implications for immunopathology and pathophysiology of COVID-19 disease

Open Date: 2020-04-01

Close Date: 2023-05-01

Grant: Close

An assessment of etiology and co-infections in African children admitted with acute gastroenteritis after introduction of rotavirus vaccination

Open Date: 2017-10-01

Close Date: 2018-09-01

Grant: Close

Viral Diarrhoea Genomics Pre- and Post Rotavirus Vaccination in Kenya to Understand Virus Source, Transmission Patterns and Vaccine Impact

Open Date: 2017-01-01

Close Date: 2020-12-01

Articles (20)

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Collaborators (11)

Matthew Cotten

Research Professor

Arizona State University

UNITED STATES

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Charity Wamwea

Lecturer

Jomo Kenyatta University of Agriculture and Technology

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Paul Ogongo

Assistant Professional Researcher

University of California, San Francisco

UNITED STATES

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Kevin Wamae

KEMRI-Wellcome Trust Research Programme

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Harish Nair

Chair of Paediatric Infectious Diseases and Global Health

University of Edinburgh

UNITED KINGDOM

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Ting Shi

Senior Lecturer (Associate Professor)

University of Edinburgh

UNITED KINGDOM

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Edward Holmes

Professor

University of Sydney

AUSTRALIA

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Philip Bejon

Director MMM Unit

University of Oxford

UNITED KINGDOM

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James Nyagwange

Mid-career researcher

KEMRI-Wellcome Trust Research Programme

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My VT Phan

Assistant Professor

Arizona State University

UNITED STATES

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Elizabeth Hunsperger

Lab Director for CDC Kenya

Centers for Disease Control and Prevention

UNITED STATES

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Charles Nyaigoti Agoti

Research Interests

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Recent Grants

Articles (20)

External Validation of Pediatric Pneumonia and Bronchiolitis Risk Scores to Predict Mortality in Children Hospitalized in Kenya: A Retrospective Cohort Study

Longitudinal Epidemiology and Variant Dynamics of SARS-CoV-2 in Coastal Kenya (2020-2025): Clinical Features and Wave Patterns

Long-term Rotarix™ vaccine effectiveness in coastal Kenya, estimated from child hospital admissions data from July 2014 to December 2022

Cholera in Kenya: A scoping review of current research, evidence gaps and future directions

Near-complete genomes from six human coronavirus HKU1-positive samples recovered by metagenomics in coastal Kenya, 2024–2025

Molecular Epidemiology of Human Metapneumovirus in Kilifi, Coastal Kenya, 2016-2017 and 2021-2024 [version 2; peer review: 1 approved, 2 approved with reservations]

Eight coding-complete genomes of human metapneumovirus recovered by virus metagenomics in coastal Kenya, 2021–2024

Viral diversity influences T-cell responses to enteric human adenoviruses F40 and F41

Coxsackievirus A24 variant whole genome sequencing from clinical samples using a three overlapping amplicons strategy

Cryptosporidium parvum virus 1 genome sequences from pediatric diarrhea cases in coastal Kenya

Assessing the Impact of SARS-CoV-2 Spike Mutations on Antibody Binding: A Comparative Assessment of the Wuhan and JN.1 Variants’ Full-Length Spikes in a Multiplex Luminex Assay

Surveillance of respiratory viruses at health facilities from across Kenya, 2014 [version 4; peer review: 2 approved, 1 approved with reservations]

Coxsackievirus A24 variant whole genome sequencing from clinical samples using a three overlapping amplicons strategy [version 2; peer review: 2 approved with reservations]

Identification of coxsackievirus A24 variant during an acute hemorrhagic conjunctivitis outbreak in coastal Kenya, 2024 [version 2; peer review: 4 approved with reservations]

Contexts, Facilitators, and Barriers to Integrating Portable Genomics for Outbreak Response in Coastal Kenya: A Qualitative Analysis of Participatory Stakeholder Discussions [version 1; peer review: 2 approved with reservations]

The genome sequence of varicella-zoster virus ( Varicellovirus humanalpha3 ) obtained by metagenomics from a patient presenting with an exanthem rash

Adenovirus-Specific T Cells in Adults Are Frequent, Cross-Reactive to Common Childhood Adenovirus Infections and Boosted by Adenovirus-Vectored Vaccines

Emergence and transmission dynamics of the FY.4 Omicron variant in Kenya

Epidemiological dynamics of Influenza B virus across multiple seasons in Kenya and Uganda inferred from sequence data, 2010-2021

Genomic Epidemiology of Coxsackievirus A24 Variant During the 2024 Acute Hemorrhagic Conjunctivitis Outbreak in Coastal Kenya

Collaborators (11)

Matthew Cotten

Charity Wamwea

Paul Ogongo

Kevin Wamae

Harish Nair

Ting Shi

Edward Holmes

Philip Bejon

James Nyagwange

My VT Phan

Elizabeth Hunsperger

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