Agoti CN

An optimization of four SARS-CoV-2 qRT-PCR assays in a Kenyan laboratory to support the national COVID-19 rapid response teams.Mohammed KS, de Laurent ZR, Omuoyo DO, Lewa C, Gicheru E, Cheruiyot R, Bartilol B, Mutua S, Musyoki J, Gumba H, Mwacharo J, Riako D, Mwangi SJ, Gichuki BM, Nyamako L, Karani A, Karanja H, Mugo D, Gitonga JN, Njuguna S, Gumbi W, Tawa B, Tendwa M, Cheruiyot W, Sein Y, Nyambu JK, Patta SO, Thani TS, Maitha EK, Kitole B, Mwakinangu MS, Muslih BS, Otieno JO, Nyiro JU, Kiyuka P, Ndwiga L, Wamae K, Kimani D, Makale J, Morobe JM, Osoti V, Lambisia AW, Odundo C, Mwarumba S, Mutunga M, Bejon P, Tsofa B, Agoti CN, Ochola-Oyier LI
Wellcome Open Res, (2020). 5:162

Epidemiological and evolutionary dynamics of influenza B virus in coastal Kenya as revealed by genomic analysis of strains sampled over a single season.Nyasimi FM, Owuor DC, Ngoi JM, Mwihuri AG, Otieno GP, Otieno JR, Githinji G, Nyiro JU, Nokes DJ, Agoti CN
Virus Evol, (2020). 6:veaa045

Evolution of respiratory syncytial virus genotype BA in Kilifi, Kenya, 15 years on.Kamau E, Otieno JR, Lewa CS, Mwema A, Murunga N, Nokes DJ, Agoti CN
Sci Rep, (2020). 10:21176

Multiple Introductions and Predominance of Rotavirus Group A Genotype G3P[8] in Kilifi, Coastal Kenya, 4 Years after Nationwide Vaccine Introduction.Mwanga MJ, Verani JR, Omore R, Tate JE, Parashar UD, Murunga N, Gicheru E, Breiman RF, Nokes DJ, Agoti CN
Pathogens, (2020). 9:981

Effectiveness of Rotarix ((R)) vaccine in Africa in the first decade of progressive introduction, 2009-2019: systematic review and meta-analysis.Murunga N, Otieno PG, Maia M, Agoti CN
Wellcome Open Res, (2020). 5:187

Pooled testing conserves SARS-CoV-2 laboratory resources and improves test turn-around time: experience on the Kenyan Coast.Agoti CN, Mutunga M, Lambisia AW, Kimani D, Cheruiyot R, Kiyuka P, Lewa C, Gicheru E, Tendwa M, Said Mohammed K, Osoti V, Makale J, Tawa B, Odundo C, Cheruiyot W, Nyamu W, Gumbi W, Mwacharo J, Nyamako L, Otieno E, Amadi D, Thoya J, Karani A, Mugo D, Musyoki J, Gumba H, Mwarumba S, Gichuki BM, Njuguna S, Riako D, Mutua S, Gitonga JN, Sein Y, Bartilol B, Mwangi SJ, Omuoyo DO, Morobe JM, de Laurent ZR, Bejon P, Ochola-Oyier LI, Tsofa B
Wellcome Open Res, (2020). 5:186

Molecular Epidemiology of Human Rhinovirus From 1-Year Surveillance Within a School Setting in Rural Coastal Kenya.Luka MM, Kamau E, Adema I, Munywoki PK, Otieno GP, Gicheru E, Gichuki A, Kibinge N, Agoti CN, Nokes DJ
Open Forum Infect Dis, (2020). 7:ofaa385

Surveillance of endemic human coronaviruses (HCoV-NL63, OC43 and 229E) associated with childhood pneumonia in Kilifi, Kenya.Otieno GP, Murunga N, Agoti CN, Gallagher KE, Awori JO, Nokes DJ
Wellcome Open Res, (2020). 5:150

Genomic epidemiology and evolutionary dynamics of respiratory syncytial virus group B in Kilifi, Kenya, 2015-17.Kamau E, Otieno JR, Murunga N, Oketch JW, Ngoi JM, de Laurent ZR, Mwema A, Nyiro JU, Agoti CN, Nokes DJ
Virus Evol, (2020). 6:veaa050

Epidemiological Trends of Five Common Diarrhea-Associated Enteric Viruses Pre- and Post-Rotavirus Vaccine Introduction in Coastal Kenya.Lambisia AW, Onchaga S, Murunga N, Lewa CS, Nyanjom SG, Agoti CN
Pathogens, (2020). 9:660

Rotavirus group A genotype circulation patterns across Kenya before and after nationwide vaccine introduction, 2010-2018.Mwanga MJ, Owor BE, Ochieng JB, Ngama MH, Ogwel B, Onyango C, Juma J, Njeru R, Gicheru E, Otieno GP, Khagayi S, Agoti CN, Bigogo GM, Omore R, Addo OY, Mapaseka S, Tate JE, Parashar UD, Hunsperger E, Verani JR, Breiman RF, Nokes DJ
BMC Infect Dis, (2020). 20:504

Transmission and evolutionary dynamics of human coronavirus OC43 strains in coastal Kenya investigated by partial spike sequence analysis, 2015-16.Abidha CA, Nyiro J, Kamau E, Abdullahi O, Nokes DJ, Agoti CN
Virus Evol, (2020). 6:veaa031

Correction to: Whole genome sequencing and phylogenetic analysis of human metapneumovirus strains from Kenya and Zambia.Kamau E, Oketch JW, de Laurent ZR, Phan MVT, Agoti CN, Nokes DJ, Cotten M
BMC Genomics, (2020). 21:83

Genetic characterization of influenza A(H3N2) viruses circulating in coastal Kenya, 2009-2017.Owuor DC, Ngoi JM, Otieno JR, Otieno GP, Nyasimi FM, Nyiro JU, Agoti CN, Chaves SS, Nokes DJ
Influenza Other Respir Viruses, (2020). 14:320-330

Whole genome sequencing and phylogenetic analysis of human metapneumovirus strains from Kenya and Zambia.Kamau E, Oketch JW, de Laurent ZR, Phan MVT, Agoti CN, Nokes DJ, Cotten M
BMC Genomics, (2020). 21:5

Genome Sequences of Human Coronavirus OC43 and NL63, Associated with Respiratory Infections in Kilifi, Kenya.Kamau E, Luka MM, de Laurent ZR, Adema I, Agoti CN, Nokes DJ
Microbiol Resour Announc, (2019). 8:

Human metapneumovirus prevalence and patterns of subgroup persistence identified through surveillance of pediatric pneumonia hospital admissions in coastal Kenya, 2007-2016.Oketch JW, Kamau E, Otieno GP, Otieno JR, Agoti CN, Nokes DJ
BMC Infect Dis, (2019). 19:757

Genomic analysis of respiratory syncytial virus infections in households and utility in inferring who infects the infant.Agoti CN, Phan MVT, Munywoki PK, Githinji G, Medley GF, Cane PA, Kellam P, Cotten M, Nokes DJ
Sci Rep, (2019). 9:10076

Complete Genome Sequences of Dengue Virus Type 2 Strains from Kilifi, Kenya.Kamau E, Agoti CN, Ngoi JM, de Laurent ZR, Gitonga J, Cotten M, Phan MVT, Nokes DJ, Delwart E, Sanders E, Warimwe GM
Microbiol Resour Announc, (2019). 8:

An Intensive, Active Surveillance Reveals Continuous Invasion and High Diversity of Rhinovirus in Households.Kamau E, Onyango CO, Otieno GP, Kiyuka PK, Agoti CN, Medley GF, Cane PA, Nokes DJ, Munywoki PK
J Infect Dis, (2019). 219:1049-1057