George Githinji

Endemic chikungunya fever in Kenyan children: a prospective cohort study.Nyamwaya DK, Otiende M, Omuoyo DO, Githinji G, Karanja HK, Gitonga JN, de Laurent ZR, Otieno JR, Sang R, Kamau E, Cheruiyot S, Otieno E, Agoti CN, Bejon P, Thumbi SM, Warimwe GM
BMC Infect Dis, (2021). 21:186

The utility of Escherichia coli as a contamination indicator for rural drinking water: Evidence from whole genome sequencing.Nowicki S, deLaurent ZR, de Villiers EP, Githinji G, Charles KJ
PLoS One, (2021). 16:e0245910

Characteristics of SARS-CoV-2 infections in households in rural coastal Kenya: a prospective genomic study..Agoti CN, Nyiro J, Murunga N, Lambisia AW, Mohammed KS, de Laurent ZR, Morobe JM, Mburu MW, Ndwiga L, Ongera EM, Makori T, Musyoki J, Mwangangi J, Tsofa B, Ochola-Oyier LI, Bejon P, Githinji G, Nokes DJ, Gallagher KE
1st International Conference on Public Health in Africa (CPHIA-2021), (2021). :

Genomic surveillance of SARS-CoV-2 in Kenya: March 2020-October 2021..Githinji G, Lambisia WA, Mohamed KS, Morobe MJ, de Laurent ZR, Mburu WM, Ongera ME, Omuoyo OD, Ndwiga L, Otieno E, Murunga N, Musyoki J, KWTRP COVID Testing Team, Kilifi Rapid Response Team, Kiiru J, Kasera K, Amoth P, Mwangangi M, Aman R, Kinyanjui S, Warimwe GM, Agweyu A, Barasa E, Tsofa B, Mwangangi J, Matoke D, Nokes DJ, Bejon P, Ochola-Oyier LI, Agoti CN
1st International Conference on Public Health in Africa (CPHIA-2021), (2021). :

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

Exploring Plasmodium falciparum Var Gene Expression to Assess Host Selection Pressure on Parasites During Infancy.Kivisi CA, Muthui M, Hunt M, Fegan G, Otto TD, Githinji G, Warimwe GM, Rance R, Marsh K, Bull PC, Abdi AI
Front Immunol, (2019). 10:2328

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

Scalable Workflows and Reproducible Data Analysis for Genomics.Strozzi F, Janssen R, Wurmus R, Crusoe MR, Githinji G, Di Tommaso P, Belhachemi D, Moller S, Smant G, de Ligt J, Prins P
Methods Mol Biol, (2019). 1910:723-745

Journal of Open Source Software (JOSS): design and first-year review.Smith AM, Niemeyer KE, Katz DS, Barba LA, Githinji G, Gymrek M, Huff KD, Madan CR, Mayes AC, Moerman KM, Prins P, Ram K, Rokem A, Teal TK, Guimera RV, Vanderplas JT
PeerJ Prepr, (2018). 4:e147

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

A re-assessment of gene-tag classification approaches for describing var gene expression patterns during human Plasmodium falciparum malaria parasite infections.Githinji G, Bull PC
Wellcome Open Res, (2017). 2:86

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:

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

Prognostic indicators of life-threatening malaria are associated with distinct parasite variant antigen profiles.Warimwe GM, Fegan G, Musyoki JN, Newton CR, Opiyo M, Githinji G, Andisi C, Menza F, Kitsao B, Marsh K, Bull PC
Sci Transl Med, (2012). 4:129ra45

Biogem: an effective tool-based approach for scaling up open source software development in bioinformatics.Bonnal RJ, Aerts J, Githinji G, Goto N, MacLean D, Miller CA, Mishima H, Pagani M, Ramirez-Gonzalez R, Smant G, Strozzi F, Syme R, Vos R, Wennblom TJ, Woodcroft BJ, Katayama T, Prins P
Bioinformatics, (2012). 28:1035-7