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Items: 30

1.

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 Aug 30;19(1):757. doi: 10.1186/s12879-019-4381-9.

2.

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 Jul 11;9(1):10076. doi: 10.1038/s41598-019-46509-w.

3.

Molecular characterization of rotavirus group A strains circulating prior to vaccine introduction in rural coastal Kenya, 2002-2013.

Owor BE, Mwanga MJ, Njeru R, Mugo R, Ngama M, Otieno GP, Nokes DJ, Agoti CN.

Version 2. Wellcome Open Res. 2019 May 15 [revised 2019 Jan 1];3:150. doi: 10.12688/wellcomeopenres.14908.2. eCollection 2018.

4.

Human rhinovirus spatial-temporal epidemiology in rural coastal Kenya, 2015-2016, observed through outpatient surveillance.

Morobe JM, Nyiro JU, Brand S, Kamau E, Gicheru E, Eyase F, Otieno GP, Munywoki PK, Agoti CN, Nokes DJ.

Version 2. Wellcome Open Res. 2019 Mar 27 [revised 2019 Jan 1];3:128. doi: 10.12688/wellcomeopenres.14836.2. eCollection 2018.

5.

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 Jan 24;8(4). pii: e01566-18. doi: 10.1128/MRA.01566-18. eCollection 2019 Jan.

6.

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 Mar 15;219(7):1049-1057. doi: 10.1093/infdis/jiy621.

7.

Evaluating the performance of tools used to call minority variants from whole genome short-read data.

Said Mohammed K, Kibinge N, Prins P, Agoti CN, Cotten M, Nokes DJ, Brand S, Githinji G.

Version 2. Wellcome Open Res. 2018 Sep 13 [revised 2018 Jan 1];3:21. doi: 10.12688/wellcomeopenres.13538.2. eCollection 2018.

8.

Erratum: Whole genome analysis of local Kenyan and global sequences unravels the epidemiological and molecular evolutionary dynamics of RSV genotype ON1 strains.

Otieno JR, Kamau EM, Oketch JW, Ngoi JM, Gichuki AM, Binter Š, Otieno GP, Ngama M, Agoti CN, Cane PA, Kellam P, Cotten M, Lemey P, Nokes DJ.

Virus Evol. 2018 Nov 16;4(2):vey036. doi: 10.1093/ve/vey036. eCollection 2018 Jul.

9.

Whole genome analysis of local Kenyan and global sequences unravels the epidemiological and molecular evolutionary dynamics of RSV genotype ON1 strains.

Otieno JR, Kamau EM, Oketch JW, Ngoi JM, Gichuki AM, Binter Š, Otieno GP, Ngama M, Agoti CN, Cane PA, Kellam P, Cotten M, Lemey P, Nokes DJ.

Virus Evol. 2018 Sep 24;4(2):vey027. doi: 10.1093/ve/vey027. eCollection 2018 Jul. Erratum in: Virus Evol. 2018 Nov 16;4(2):vey036.

10.

Human Coronavirus NL63 Molecular Epidemiology and Evolutionary Patterns in Rural Coastal Kenya.

Kiyuka PK, Agoti CN, Munywoki PK, Njeru R, Bett A, Otieno JR, Otieno GP, Kamau E, Clark TG, van der Hoek L, Kellam P, Nokes DJ, Cotten M.

J Infect Dis. 2018 May 5;217(11):1728-1739. doi: 10.1093/infdis/jiy098.

11.

Continuous Invasion by Respiratory Viruses Observed in Rural Households During a Respiratory Syncytial Virus Seasonal Outbreak in Coastal Kenya.

Munywoki PK, Koech DC, Agoti CN, Cane PA, Medley GF, Nokes DJ.

Clin Infect Dis. 2018 Oct 30;67(10):1559-1567. doi: 10.1093/cid/ciy313.

12.

A26 Transmission patterns and evolution of RSV in a community outbreak identified by genomic analysis.

Agoti CN, Munywoki PK, Phan MVT, Otieno JR, Kamau E, Bett A, Kombe I, Githinji G, Medley GF, Cane PA, Kellam P, Cotton M, Nokes DJ.

Virus Evol. 2017 Mar 5;3(Suppl 1). pii: vew036.025. doi: 10.1093/ve/vew036.025. eCollection 2017 Mar. No abstract available.

13.

A49 Molecular evolutionary dynamics of respiratory syncytial virus group A in recurrent epidemics in coastal Kenya.

Otieno JR, Agoti CN, Gitahi CW, Bett A, Ngama M, Medley GF, Cane PA, Nokes DJ.

Virus Evol. 2017 Mar 5;3(Suppl 1). pii: vew036.048. doi: 10.1093/ve/vew036.048. eCollection 2017 Mar. No abstract available.

14.

Transmission patterns and evolution of respiratory syncytial virus in a community outbreak identified by genomic analysis.

Agoti CN, Munywoki PK, Phan MVT, Otieno JR, Kamau E, Bett A, Kombe I, Githinji G, Medley GF, Cane PA, Kellam P, Cotten M, Nokes DJ.

Virus Evol. 2017 Mar 11;3(1):vex006. doi: 10.1093/ve/vex006. eCollection 2017 Jan.

15.

Recent sequence variation in probe binding site affected detection of respiratory syncytial virus group B by real-time RT-PCR.

Kamau E, Agoti CN, Lewa CS, Oketch J, Owor BE, Otieno GP, Bett A, Cane PA, Nokes DJ.

J Clin Virol. 2017 Mar;88:21-25. doi: 10.1016/j.jcv.2016.12.011. Epub 2017 Jan 5.

16.

Spread and Evolution of Respiratory Syncytial Virus A Genotype ON1, Coastal Kenya, 2010-2015.

Otieno JR, Kamau EM, Agoti CN, Lewa C, Otieno G, Bett A, Ngama M, Cane PA, Nokes DJ.

Emerg Infect Dis. 2017 Feb;23(2):264-271. doi: 10.3201/eid2302.161149.

17.

Human Rhinovirus B and C Genomes from Rural Coastal Kenya.

Agoti CN, Kiyuka PK, Kamau E, Munywoki PK, Bett A, van der Hoek L, Kellam P, Nokes DJ, Cotten M.

Genome Announc. 2016 Jul 28;4(4). pii: e00751-16. doi: 10.1128/genomeA.00751-16.

18.

Human metapneumovirus epidemiological and evolutionary patterns in Coastal Kenya, 2007-11.

Owor BE, Masankwa GN, Mwango LC, Njeru RW, Agoti CN, Nokes DJ.

BMC Infect Dis. 2016 Jun 17;16:301. doi: 10.1186/s12879-016-1605-0.

19.

Molecular Evolutionary Dynamics of Respiratory Syncytial Virus Group A in Recurrent Epidemics in Coastal Kenya.

Otieno JR, Agoti CN, Gitahi CW, Bett A, Ngama M, Medley GF, Cane PA, Nokes DJ.

J Virol. 2016 Apr 29;90(10):4990-5002. doi: 10.1128/JVI.03105-15. Print 2016 May 15.

20.

Successive Respiratory Syncytial Virus Epidemics in Local Populations Arise from Multiple Variant Introductions, Providing Insights into Virus Persistence.

Agoti CN, Otieno JR, Ngama M, Mwihuri AG, Medley GF, Cane PA, Nokes DJ.

J Virol. 2015 Nov;89(22):11630-42. doi: 10.1128/JVI.01972-15. Epub 2015 Sep 9.

21.

Frequent Asymptomatic Respiratory Syncytial Virus Infections During an Epidemic in a Rural Kenyan Household Cohort.

Munywoki PK, Koech DC, Agoti CN, Bett A, Cane PA, Medley GF, Nokes DJ.

J Infect Dis. 2015 Dec 1;212(11):1711-8. doi: 10.1093/infdis/jiv263. Epub 2015 May 4.

22.

Local evolutionary patterns of human respiratory syncytial virus derived from whole-genome sequencing.

Agoti CN, Otieno JR, Munywoki PK, Mwihuri AG, Cane PA, Nokes DJ, Kellam P, Cotten M.

J Virol. 2015 Apr;89(7):3444-54. doi: 10.1128/JVI.03391-14. Epub 2015 Jan 21.

23.

Influence of age, severity of infection, and co-infection on the duration of respiratory syncytial virus (RSV) shedding.

Munywoki PK, Koech DC, Agoti CN, Kibirige N, Kipkoech J, Cane PA, Medley GF, Nokes DJ.

Epidemiol Infect. 2015 Mar;143(4):804-12. doi: 10.1017/S0950268814001393. Epub 2014 Jun 5.

24.

Rapid spread and diversification of respiratory syncytial virus genotype ON1, Kenya.

Agoti CN, Otieno JR, Gitahi CW, Cane PA, Nokes DJ.

Emerg Infect Dis. 2014 Jun;20(6):950-9. doi: 10.3201/eid2006.131438.

25.

Examining strain diversity and phylogeography in relation to an unusual epidemic pattern of respiratory syncytial virus (RSV) in a long-term refugee camp in Kenya.

Agoti CN, Mayieka LM, Otieno JR, Ahmed JA, Fields BS, Waiboci LW, Nyoka R, Eidex RB, Marano N, Burton W, Montgomery JM, Breiman RF, Nokes DJ.

BMC Infect Dis. 2014 Apr 1;14:178. doi: 10.1186/1471-2334-14-178.

26.

The source of respiratory syncytial virus infection in infants: a household cohort study in rural Kenya.

Munywoki PK, Koech DC, Agoti CN, Lewa C, Cane PA, Medley GF, Nokes DJ.

J Infect Dis. 2014 Jun 1;209(11):1685-92. doi: 10.1093/infdis/jit828. Epub 2013 Dec 23.

27.

Identification of group B respiratory syncytial viruses that lack the 60-nucleotide duplication after six consecutive epidemics of total BA dominance at coastal Kenya.

Agoti CN, Gitahi CW, Medley GF, Cane PA, Nokes DJ.

Influenza Other Respir Viruses. 2013 Nov;7(6):1008-12. doi: 10.1111/irv.12131. Epub 2013 Jun 20.

28.

Genetic relatedness of infecting and reinfecting respiratory syncytial virus strains identified in a birth cohort from rural Kenya.

Agoti CN, Mwihuri AG, Sande CJ, Onyango CO, Medley GF, Cane PA, Nokes DJ.

J Infect Dis. 2012 Nov 15;206(10):1532-41. doi: 10.1093/infdis/jis570. Epub 2012 Sep 10.

29.

Molecular epidemiology of human rhinovirus infections in Kilifi, coastal Kenya.

Onyango CO, Welch SR, Munywoki PK, Agoti CN, Bett A, Ngama M, Myers R, Cane PA, Nokes DJ.

J Med Virol. 2012 May;84(5):823-31. doi: 10.1002/jmv.23251.

30.

Intrapatient variation of the respiratory syncytial virus attachment protein gene.

Agoti CN, Mbisa JL, Bett A, Medley GF, Nokes DJ, Cane PA.

J Virol. 2010 Oct;84(19):10425-8. doi: 10.1128/JVI.01181-10. Epub 2010 Jul 21.

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