George Githinji
Coxsackievirus A24 variant whole genome sequencing from clinical samples using a three overlapping amplicons strategy.Morobe JM, Odoyo S, Lambisia AW, Moraa E, Houldcroft CJ, Holmes EC, Githinji G, Agoti CN
Wellcome Open Res, (2025). 10:316
Genomic and clinical epidemiology of SARS-CoV-2 in coastal Kenya: insights into variant circulation, reinfection, and multiple lineage importations during a post-pandemic wave.Lambisia AW, Katama EN, Moraa E, Mwita JM, Gallagher K, Mutunga M, Nyale E, Omungala J, Mwanga M, Murunga N, Nyiro J, Nyagwange J, Sande C, Bejon P, Githinji G, Dellicour S, Phan MVT, Cotten M, Ochola-Oyier LI, Holmes EC, Agoti CN
BMC Glob Public Health, (2025). 3:80
Epidemiological dynamics of influenza B virus across multiple seasons in Kenya and Uganda inferred from sequence data, 2010-2021.Nyarango BK, Owuor DC, Isoe E, Mutunga M, Cheruiyot R, Katama EN, Makori T, Lambisia A, Nyiro J, Githinji G, Kiguli S, Olupot-Olupot P, Maitland K, Agoti CN
BMC Infect Dis, (2025). 25:1080
GRAPEVNE - Graphical Analytical Pipeline Development Environment for Infectious Diseases.Brittain JS, Tsui J, Inward R, Gutierrez B, Mwanyika G, Tegally H, Huynh T, Githinji G, Tessema SK, McCrone JT, Bhatt S, Dasgupta A, Ratcliffe S, Kraemer MUG
Wellcome Open Res, (2025). 10:279
Emergence and transmission dynamics of the FY.4 Omicron variant in Kenya.Musundi S, Mwanga M, Lambisia A, Morobe JM, Murunga N, Moraa E, Ndwiga L, Cheruiyot R, Musyoki J, Mutunga M, Guzman-Rincon LM, Sande C, Mwangangi J, Bejon P, Ochola-Oyier LI, Nokes DJ, Agoti CN, Nyiro J, Githinji G
Virus Evol, (2025). 11:veaf035
Deploying Metagenomics to Characterize Microbial Pathogens During Outbreak of Acute Febrile Illness Among Children in Tanzania.Mziray SR, Githinji G, de Laurent ZR, Mbelele PM, Mohammed KS, Wadugu BD, Grundy BS, Heysell SK, Mpagama SG, Chilongola JO
Pathogens, (2025). 14:
The genome sequence of varicella-zoster virus (Varicellovirus humanalpha3) obtained by metagenomics from a patient presenting with an exanthem rash.Musundi S, Okanda D, Lambisia A, Morobe JM, Muthanje E, Ochola-Oyier LI, Carter DP, Agoti CN, Kiiru J, Githinji G
Microbiol Resour Announc, (2025). :e0024825
Identification of coxsackievirus A24 variant during an acute hemorrhagic conjunctivitis outbreak in coastal Kenya, 2024.Lambisia AW, Mwita Morobe J, Moraa E, Mwarumba S, Korir FKN, Seif Athman R, Kiptui R, Mbee M, Mugo N, Amoth P, Muange P, Houldcroft JC, Barasa E, Mwangangi J, Githinji G, Holmes CE, Ochola-Oyier LI, Agoti CN
Wellcome Open Res, (2025). 10:28
Hepatitis B Core-Related Antigen Point-of-Care Tests as a Risk Stratification Tool for Treatment Eligibility: Experience From Kenya.Downs LO, Okanda D, Chirro O, Zaharani M, Safari B, Aliyan N, Andersson MI, Tanaka Y, Etyang AO, Shimakawa Y, Githinji G, Matthews PC
Open Forum Infect Dis, (2025). 12:ofaf125
Evaluation of population immunity against SARS-CoV-2 variants, EG.5.1, FY.4, BA.2.86, JN.1, JN.1.4, and KP.3.1.1 using samples from two health demographic surveillance systems in Kenya.Lugano D, Kutima B, Kimani M, Sigilai A, Gitonga J, Karani A, Akech D, Karia B, Ziraba AK, Maina A, Lambisia A, Omuoyo D, Mugo D, Lucinde R, Owuor S, Konyino G, Newman J, Bailey D, Nduati E, Githinji G, Agoti CN, Bejon P, Scott JAG, Agweyu A, Kagucia W, Warimwe GM, Sande C, Ochola-Oyier LI, Nyagwange J
BMC Infect Dis, (2024). 24:1474
STRIKE-HBV: establishing an HBV screening programme in Kilifi, Kenya-challenges, successes and lessons learnt.Downs LO, Chirro O, Zaharani M, Safari B, Okanda D, Githinji G, Andersson MI, Newton R, Etyang A, Aliyan N, Matthews PC
Sex Transm Infect, (2024). 100:325-328
Where do those data go? Reuse of screening results from clinical trials to estimate population prevalence of HBV infection in adults in Kilifi, Kenya.Downs LO, Campbell C, Abouyannis M, Otiende M, Kapulu M, Obiero CW, Hamaluba M, Ngetsa C, Andersson MI, Githinji G, Warimwe G, Baisley K, Scott JAG, Matthews PC, Etyang A
J Virus Erad, (2023). 9:100355
Symptom prevalence and secondary attack rate of SARS-CoV-2 in rural Kenyan households: A prospective cohort study.Gallagher KE, Nyiro J, Agoti CN, Maitha E, Nyagwange J, Karani A, Bottomley C, Murunga N, Githinji G, Mutunga M, Ochola-Oyier LI, Kombe I, Nyaguara A, Kagucia EW, Warimwe G, Agweyu A, Tsofa B, Bejon P, Scott JAG, Nokes DJ
Influenza Other Respir Viruses, (2023). 17:e13185
New SARS-CoV-2 Omicron Variant with Spike Protein Mutation Y451H, Kilifi, Kenya, March-May 2023.Mwanga MJ, Lambisia AW, Morobe JM, Murunga N, Moraa E, Ndwiga L, Cheruiyot R, Musyoki J, Mutunga M, Guzman-Rincon LM, Sande C, Mwangangi J, Bejon P, Ochola-Oyier LI, Nokes DJ, Agoti CN, Nyiro J, Githinji G
Emerg Infect Dis, (2023). 29:
A pan-African pathogen genomics data sharing platform to support disease outbreaks.Christoffels A, Mboowa G, van Heusden P, Makhubela S, Githinji G, Mwangi S, Onywera H, Nnaemeka N, Amoako DG, Olawoye I, Diallo A, Mbala-Kingebeni P, Oyola SO, Adu B, Mvelase C, Ondoa P, Dratibi FA, Sow A, Gumede N, Tessema SK, Ouma AO, Tebeje YK
Nat Med, (2023). 29:1052-1055
Genomic epidemiology of human adenovirus F40 and F41 in coastal Kenya: A retrospective hospital-based surveillance study (2013-2022).Lambisia AW, Makori TO, Mutunga M, Cheruiyot R, Murunga N, Quick J, Githinji G, Nokes DJ, Houldcroft CJ, Agoti CN
Virus Evol, (2023). 9:vead023
A systematic review of Hepatitis B virus (HBV) prevalence and genotypes in Kenya: Data to inform clinical care and health policy.Downs LO, Campbell C, Yonga P, Githinji G, Ansari MA, Matthews PC, Etyang AO
PLOS Glob Public Health, (2023). 3:e0001165
Toward a global virus genomic surveillance network.Hill V, Githinji G, Vogels CBF, Bento AI, Chaguza C, Carrington CVF, Grubaugh ND
Cell Host Microbe, (2023). S1931-3128:00107-5
Whole-genome sequencing of SARS-CoV-2 isolates from symptomatic and asymptomatic individuals in Tanzania.Mziray SR, van Zwetselaar M, Kayuki CC, Mbelele PM, Makubi AN, Magesa AS, Kisonga RM, Sonda TB, Kibiki GS, Githinji G, Heysell SK, Chilongola JO, Mpagama SG
Front Med (Lausanne), (2022). 9:1034682
Global disparities in SARS-CoV-2 genomic surveillance.Brito AF, Semenova E, Dudas G, Hassler GW, Kalinich CC, Kraemer MUG, Ho J, Tegally H, Githinji G, Agoti CN, Matkin LE, Whittaker C, Howden BP, Sintchenko V, Zuckerman NS, Mor O, Blankenship HM, de Oliveira T, Lin RTP, Siqueira MM, Resende PC, Vasconcelos ATR, Spilki FR, Aguiar RS, Alexiev I, Ivanov IN, Philipova I, Carrington CVF, Sahadeo NSD, Branda B, Gurry C, Maurer-Stroh S, Naidoo D, von Eije KJ, Perkins MD, van Kerkhove M, Hill SC, Sabino EC, Pybus OG, Dye C, Bhatt S, Flaxman S, Suchard MA, Grubaugh ND, Baele G, Faria NR
Nat Commun, (2022). 13:7003
