James Nokes

Model-based estimates of transmission of respiratory syncytial virus within households.Kombe IK Munywoki PK Baguelin M Nokes DJ Medley GF
Epidemics, (2019). 27:1-11

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

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
Wellcome Open Res, (2018). 3:150

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
Wellcome Open Res, (2018). 3:128

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
Wellcome Open Res, (2018). 3:21

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 S Otieno GP Ngama M Agoti CN Cane PA Kellam P Cotten M Lemey P Nokes DJ
Virus Evol, (2018). 4:vey036

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 S Otieno GP Ngama M Agoti CN Cane PA Kellam P Cotten M Lemey P Nokes DJ
Virus Evol, (2018). 4:vey027

Untargeted analysis of the airway proteomes of children with respiratory infections using mass spectrometry based proteomics.Sande CJ Mutunga M Muteti J Berkley JA Nokes DJ Njunge J
Sci Rep, (2018). 8:13814

Surveillance of respiratory viruses in the outpatient setting in rural coastal Kenya: baseline epidemiological observations.Nyiro JU Munywoki P Kamau E Agoti C Gichuki A Etyang T Otieno G Nokes DJ
Wellcome Open Res, (2018). 3:89

Impact of viral upper respiratory tract infection on the concentration of nasopharyngeal pneumococcal carriage among Kenyan children.Morpeth SC Munywoki P Hammitt LL Bett A Bottomley C Onyango CO Murdoch DR Nokes DJ Scott JAG
Sci Rep, (2018). 8:11030

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). 217:1728-1739

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). 67:1559-1567

Global respiratory syncytial virus-associated mortality in young children (RSV GOLD): a retrospective case series.Scheltema NM Gentile A Lucion F Nokes DJ Munywoki PK Madhi SA Groome MJ Cohen C Moyes J Thorburn K Thamthitiwat S Oshitani H Lupisan SP Gordon A Sanchez JF O'Brien KL Perch Study Group Gessner BD Sutanto A Mejias A Ramilo O Khuri-Bulos N Halasa N de-Paris F Pires MR Spaeder MC Paes BA Simoes EAF Leung TF da Costa Oliveira MT de Freitas Lazaro Emediato CC Bassat Q Butt W Chi H Aamir UB Ali A Lucero MG Fasce RA Lopez O Rath BA Polack FP Papenburg J Roglic S Ito H Goka EA Grobbee DE Nair H Bont LJ
Lancet Glob Health, (2017). 5:e984-e991

A27 Using whole genome sequence data and minority variant profiles to elucidate transmission patterns during RSV household outbreaks.Githinji G Agoti C Munywoki P Bett A Kellam P Cotton M Nokes DJ
Virus Evol, (2017). 3:

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). 3:

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). 3:

Global, regional, and national disease burden estimates of acute lower respiratory infections due to respiratory syncytial virus in young children in 2015: a systematic review and modelling study.Shi T McAllister DA O'Brien KL Simoes EAF Madhi SA Gessner BD Polack FP Balsells E Acacio S Aguayo C Alassani I Ali A Antonio M Awasthi S Awori JO Azziz-Baumgartner E Baggett HC Baillie VL Balmaseda A Barahona A Basnet S Bassat Q Basualdo W Bigogo G Bont L Breiman RF Brooks WA Broor S Bruce N Bruden D Buchy P Campbell S Carosone-Link P Chadha M Chipeta J Chou M Clara W Cohen C de Cuellar E Dang DA Dash-Yandag B Deloria-Knoll M Dherani M Eap T Ebruke BE Echavarria M de Freitas Lazaro Emediato CC Fasce RA Feikin DR Feng L Gentile A Gordon A Goswami D Goyet S Groome M Halasa N Hirve S Homaira N Howie SRC Jara J Jroundi I Kartasasmita CB Khuri-Bulos N Kotloff KL Krishnan A Libster R Lopez O Lucero MG Lucion F Lupisan SP Marcone DN McCracken JP Mejia M Moisi JC Montgomery JM Moore DP Moraleda C Moyes J Munywoki P Mutyara K Nicol MP Nokes DJ Nymadawa P da Costa Oliveira MT Oshitani H Pandey N Paranhos-Baccala G Phillips LN Picot VS Rahman M Rakoto-Andrianarivelo M Rasmussen ZA Rath BA Robinson A Romero C Russomando G Salimi V Sawatwong P Scheltema N Schweiger B Scott JAG Seidenberg P Shen K Singleton R Sotomayor V Strand TA Sutanto A Sylla M Tapia MD Thamthitiwat S Thomas ED Tokarz R Turner C Venter M Waicharoen S Wang J Watthanaworawit W Yoshida LM Yu H Zar HJ Campbell H Nair H RSVGlobal Epidemiology Network
Lancet, (2017). 390:946-958

Assessing the efficiency of catch-up campaigns for the introduction of pneumococcal conjugate vaccine: a modelling study based on data from PCV10 introduction in Kilifi, Kenya.Flasche S Ojal J Le Polain de Waroux O Otiende M O'Brien KL Kiti M Nokes DJ Edmunds WJ Scott JAG
BMC Med, (2017). 15:113

Defining the vaccination window for respiratory syncytial virus (RSV) using age-seroprevalence data for children in Kilifi, Kenya.Nyiro JU Kombe IK Sande CJ Kipkoech J Kiyuka PK Onyango CO Munywoki PK Kinyanjui TM Nokes DJ
PLoS One, (2017). 12:e0177803

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). 3:vex006