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Items: 1 to 50 of 124

1.

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.

2.

Presence, persistence and effects of pre-treatment HIV-1 drug resistance variants detected using next generation sequencing: A Retrospective longitudinal study from rural coastal Kenya.

Hassan AS, Bibby DF, Mwaringa SM, Agutu CA, Ndirangu KK, Sanders EJ, Cane PA, Mbisa JL, Berkley JA.

PLoS One. 2019 Feb 13;14(2):e0210559. doi: 10.1371/journal.pone.0210559. eCollection 2019.

3.

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.

4.

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.

5.

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.

6.

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.

7.

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.

8.

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.

9.

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.

10.

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.

11.

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.

12.

Enhanced surveillance of HIV-1 drug resistance in recently infected MSM in the UK.

Cunningham E, Chan YT, Aghaizu A, Bibby DF, Murphy G, Tosswill J, Harris RJ, Myers R, Field N, Delpech V, Cane PA, Gill ON, Mbisa JL.

J Antimicrob Chemother. 2017 Jan;72(1):227-234. Epub 2016 Oct 14.

PMID:
27742812
13.

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.

14.

Contribution of Gag and Protease to HIV-1 Phenotypic Drug Resistance in Pediatric Patients Failing Protease Inhibitor-Based Therapy.

Giandhari J, Basson AE, Sutherland K, Parry CM, Cane PA, Coovadia A, Kuhn L, Hunt G, Morris L.

Antimicrob Agents Chemother. 2016 Mar 25;60(4):2248-56. doi: 10.1128/AAC.02682-15. Print 2016 Apr.

15.

Vaccine Induced Herd Immunity for Control of Respiratory Syncytial Virus Disease in a Low-Income Country Setting.

Kinyanjui TM, House TA, Kiti MC, Cane PA, Nokes DJ, Medley GF.

PLoS One. 2015 Sep 21;10(9):e0138018. doi: 10.1371/journal.pone.0138018. eCollection 2015.

16.

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.

17.

Evidence of Self-Sustaining Drug Resistant HIV-1 Lineages Among Untreated Patients in the United Kingdom.

Mbisa JL, Fearnhill E, Dunn DT, Pillay D, Asboe D, Cane PA; UK HIV Drug Resistance Database.

Clin Infect Dis. 2015 Sep 1;61(5):829-36. doi: 10.1093/cid/civ393. Epub 2015 May 19.

PMID:
25991470
18.

Intrapatient Evolutionary Dynamics of Human Immunodeficiency Virus Type 1 in Individuals Undergoing Alternative Treatment Strategies with Reverse Transcriptase Inhibitors.

Kayondo JK, Ndembi N, Parry CM, Cane PA, Hué S, Goodall R, Dunn DT, Kaleebu P, Pillay D, Mbisa JL; DART Virology Committee.

AIDS Res Hum Retroviruses. 2015 Jul;31(7):749-56. doi: 10.1089/AID.2015.0035. Epub 2015 Jun 4.

19.

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.

20.

Analysis of the history and spread of HIV-1 in Uganda using phylodynamics.

Yebra G, Ragonnet-Cronin M, Ssemwanga D, Parry CM, Logue CH, Cane PA, Kaleebu P, Brown AJ.

J Gen Virol. 2015 Jul;96(Pt 7):1890-8. doi: 10.1099/vir.0.000107. Epub 2015 Feb 27.

21.

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.

22.

The association between age and the development of respiratory syncytial virus neutralising antibody responses following natural infection in infants.

Sande CJ, Cane PA, Nokes DJ.

Vaccine. 2014 Aug 20;32(37):4726-9. doi: 10.1016/j.vaccine.2014.05.038. Epub 2014 Jul 6.

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.

HIV-1 virologic failure and acquired drug resistance among first-line antiretroviral experienced adults at a rural HIV clinic in coastal Kenya: a cross-sectional study.

Hassan AS, Nabwera HM, Mwaringa SM, Obonyo CA, Sanders EJ, Rinke de Wit TF, Cane PA, Berkley JA.

AIDS Res Ther. 2014 Jan 23;11(1):9. doi: 10.1186/1742-6405-11-9.

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.

Contribution of Gag and protease to variation in susceptibility to protease inhibitors between different strains of subtype B human immunodeficiency virus type 1.

Sutherland KA, Mbisa JL, Cane PA, Pillay D, Parry CM.

J Gen Virol. 2014 Jan;95(Pt 1):190-200. doi: 10.1099/vir.0.055624-0. Epub 2013 Oct 30.

PMID:
24172906
28.

Kinetics of the neutralizing antibody response to respiratory syncytial virus infections in a birth cohort.

Sande CJ, Mutunga MN, Okiro EA, Medley GF, Cane PA, Nokes DJ.

J Med Virol. 2013 Nov;85(11):2020-5. doi: 10.1002/jmv.23696.

29.

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.

30.

Low frequency of genotypic resistance in HIV-1-infected patients failing an atazanavir-containing regimen: a clinical cohort study.

Dolling DI, Dunn DT, Sutherland KA, Pillay D, Mbisa JL, Parry CM, Post FA, Sabin CA, Cane PA; UK HIV Drug Resistance Database (UKHDRD); UK Collaborative HIV Cohort Study (UK CHIC).

J Antimicrob Chemother. 2013 Oct;68(10):2339-43. doi: 10.1093/jac/dkt199. Epub 2013 May 27.

31.

Dynamics of HIV type 1 recombination following superinfection.

Koning FA, Badhan A, Shaw S, Fisher M, Mbisa JL, Cane PA.

AIDS Res Hum Retroviruses. 2013 Jun;29(6):963-70. doi: 10.1089/AID.2013.0009. Epub 2013 Apr 18.

32.

Subtype-specific differences in the development of accessory mutations associated with high-level resistance to HIV-1 nucleoside reverse transcriptase inhibitors.

Koning FA, Castro H, Dunn D, Tilston P, Cane PA, Mbisa JL; UK Collaborative Group on HIV Drug Resistance.

J Antimicrob Chemother. 2013 Jun;68(6):1220-36. doi: 10.1093/jac/dkt012. Epub 2013 Feb 5.

PMID:
23386260
33.

Influenza surveillance among children with pneumonia admitted to a district hospital in coastal Kenya, 2007-2010.

Onyango CO, Njeru R, Kazungu S, Achilla R, Bulimo W, Welch SR, Cane PA, Gunson RN, Hammitt LL, Scott JA, Berkley JA, Nokes DJ.

J Infect Dis. 2012 Dec 15;206 Suppl 1:S61-7. doi: 10.1093/infdis/jis536.

34.

Group- and genotype-specific neutralizing antibody responses against respiratory syncytial virus in infants and young children with severe pneumonia.

Sande CJ, Mutunga MN, Medley GF, Cane PA, Nokes DJ.

J Infect Dis. 2013 Feb 1;207(3):489-92. doi: 10.1093/infdis/jis700. Epub 2012 Nov 21.

35.

The natural history of respiratory syncytial virus in a birth cohort: the influence of age and previous infection on reinfection and disease.

Ohuma EO, Okiro EA, Ochola R, Sande CJ, Cane PA, Medley GF, Bottomley C, Nokes DJ.

Am J Epidemiol. 2012 Nov 1;176(9):794-802. doi: 10.1093/aje/kws257. Epub 2012 Oct 11.

36.

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.

37.

Low prevalence of transmitted HIV type 1 drug resistance among antiretroviral-naive adults in a rural HIV clinic in Kenya.

Hassan AS, Mwaringa SM, Obonyo CA, Nabwera HM, Sanders EJ, Rinke de Wit TF, Cane PA, Berkley JA.

AIDS Res Hum Retroviruses. 2013 Jan;29(1):129-35. doi: 10.1089/AID.2012.0167. Epub 2012 Sep 11.

38.

ARHAI: antiviral resistance.

Tong CY, Cane PA, Pillay D.

J Antimicrob Chemother. 2012 Jul;67 Suppl 1:i65-8. doi: 10.1093/jac/dks197.

PMID:
22855880
39.

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.

40.

Phylodynamic and phylogeographic patterns of the HIV type 1 subtype F1 parenteral epidemic in Romania.

Mbisa JL, Hué S, Buckton AJ, Myers RE, Duiculescu D, Ene L, Oprea C, Tardei G, Rugina S, Mardarescu M, Floch C, Notheis G, Zöhrer B, Cane PA, Pillay D.

AIDS Res Hum Retroviruses. 2012 Sep;28(9):1161-6. doi: 10.1089/AID.2011.0390. Epub 2012 May 3.

41.

Evaluating the extent of potential resistance to pre-exposure prophylaxis within the UK HIV-1-infectious population of men who have sex with men.

Dolling D, Phillips AN, Delpech V, Pillay D, Cane PA, Crook AM, Shepherd J, Fearnhill E, Hill T, Dunn D; UK HIV Drug Resistance Database; UK Collaborative HIV Cohort (UK CHIC) Study.

HIV Med. 2012 May;13(5):309-14. doi: 10.1111/j.1468-1293.2011.00968.x. Epub 2011 Dec 12.

42.

HIV type 1 in a rural coastal town in Kenya shows multiple introductions with many subtypes and much recombination.

Hué S, Hassan AS, Nabwera H, Sanders EJ, Pillay D, Berkley JA, Cane PA.

AIDS Res Hum Retroviruses. 2012 Feb;28(2):220-4. doi: 10.1089/aid.2011.0048. Epub 2011 Jul 19.

43.

Patterns of resistance development with integrase inhibitors in HIV.

Mbisa JL, Martin SA, Cane PA.

Infect Drug Resist. 2011;4:65-76. doi: 10.2147/IDR.S7775. Epub 2011 Feb 22.

44.

Genotypic resistance testing in routine clinical care.

Dunn DT, Coughlin K, Cane PA.

Curr Opin HIV AIDS. 2011 Jul;6(4):251-7. doi: 10.1097/COH.0b013e32834732e8. Review.

PMID:
21646877
45.

The evolution of HIV-1 reverse transcriptase in route to acquisition of Q151M multi-drug resistance is complex and involves mutations in multiple domains.

Mbisa JL, Gupta RK, Kabamba D, Mulenga V, Kalumbi M, Chintu C, Parry CM, Gibb DM, Walker SA, Cane PA, Pillay D.

Retrovirology. 2011 May 11;8:31. doi: 10.1186/1742-4690-8-31.

46.

Increased detection of the HIV-1 reverse transcriptase M184V mutation using mutation-specific minority assays in a UK surveillance study suggests evidence of unrecognized transmitted drug resistance.

Buckton AJ, Prabhu D, Motamed C, Harris RJ, Hill C, Murphy G, Parry JV, Johnson JA, Lowndes CM, Gill N, Pillay D, Cane PA.

HIV Med. 2011 Apr;12(4):250-4. doi: 10.1111/j.1468-1293.2010.00882.x. Epub 2010 Oct 14.

47.

HIV type-1 drug resistance in treatment-naive patients monitored using minority species assays: a systematic review and meta-analysis.

Buckton AJ, Harris RJ, Pillay D, Cane PA.

Antivir Ther. 2011;16(1):9-16. doi: 10.3851/IMP1687. Review.

PMID:
21311104
48.

Three residues in HIV-1 matrix contribute to protease inhibitor susceptibility and replication capacity.

Parry CM, Kolli M, Myers RE, Cane PA, Schiffer C, Pillay D.

Antimicrob Agents Chemother. 2011 Mar;55(3):1106-13. doi: 10.1128/AAC.01228-10. Epub 2010 Dec 13.

49.

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.

50.

Viral etiology of severe pneumonia among Kenyan infants and children.

Berkley JA, Munywoki P, Ngama M, Kazungu S, Abwao J, Bett A, Lassauniére R, Kresfelder T, Cane PA, Venter M, Scott JA, Nokes DJ.

JAMA. 2010 May 26;303(20):2051-7. doi: 10.1001/jama.2010.675. Erratum in: JAMA. 2010 Jun 23;303(24):2477.

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