Evaluating the performance of tools used to call minority variants from whole genome short-read data
Said Mohammed, Khadija, Kibinge, Nelson, Prins, Pjotr, Agoti, Charles N., Cotten, Matthew, Nokes, D.J., Brand, Samuel, Githinji, George
Published in Wellcome open research (2018)
Published in Wellcome open research (2018)
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Toward a global virus genomic surveillance network
Hill, Verity, Githinji, George, Vogels, Chantal B.F., Bento, Ana I., Chaguza, Chrispin, Carrington, Christine V.F., Grubaugh, Nathan D.
Published in Cell host & microbe (14.06.2023)
Published in Cell host & microbe (14.06.2023)
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Towards a global virus genomic surveillance network
Hill, Verity, Githinji, George, Vogels, Chantal B.F., Bento, Ana I., Chaguza, Chrispin, Carrington, Christine V.F., Grubaugh, Nathan D.
Published in Cell host & microbe (06.03.2023)
Published in Cell host & microbe (06.03.2023)
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COVID-19 transmission dynamics underlying epidemic waves in Kenya
Brand, Samuel P C, Ojal, John, Aziza, Rabia, Were, Vincent, Okiro, Emelda A, Kombe, Ivy K, Mburu, Caroline, Ogero, Morris, Agweyu, Ambrose, Warimwe, George M, Nyagwange, James, Karanja, Henry, Gitonga, John N, Mugo, Daisy, Uyoga, Sophie, Adetifa, Ifedayo M O, Scott, J Anthony G, Otieno, Edward, Murunga, Nickson, Otiende, Mark, Ochola-Oyier, Lynette I, Agoti, Charles N, Githinji, George, Kasera, Kadondi, Amoth, Patrick, Mwangangi, Mercy, Aman, Rashid, Ng'ang'a, Wangari, Tsofa, Benjamin, Bejon, Philip, Keeling, Matt J, Nokes, D James, Barasa, Edwine
Published in Science (American Association for the Advancement of Science) (19.11.2021)
Published in Science (American Association for the Advancement of Science) (19.11.2021)
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STRIKE-HBV: establishing an HBV screening programme in Kilifi, Kenya—challenges, successes and lessons learnt
Downs, Louise O, Chirro, Oscar, Zaharani, Mwanakombo, Safari, Benson, Okanda, Dorcas, Githinji, George, Andersson, Monique I, Newton, Rob, Etyang, Anthony, Aliyan, Nadia, Matthews, Philippa Clare
Published in Sexually transmitted infections (01.08.2024)
Published in Sexually transmitted infections (01.08.2024)
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A pan-African pathogen genomics data sharing platform to support disease outbreaks
Christoffels, Alan, Mboowa, Gerald, van Heusden, Peter, Makhubela, Sello, Githinji, George, Mwangi, Sarah, Onywera, Harris, Nnaemeka, Ndodo, Amoako, Daniel Gyamfi, Olawoye, Idowu, Diallo, Amadou, Mbala-Kingebeni, Placide, Oyola, Samuel O., Adu, Bright, Mvelase, Christopher, Ondoa, Pascale, Dratibi, Fred Athanasius, Sow, Abdourahmane, Gumede, Nicksy, Tessema, Sofonias K., Ouma, Ahmed Ogwell, Tebeje, Yenew Kebede
Published in Nature medicine (01.05.2023)
Published in Nature medicine (01.05.2023)
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Scalable Workflows and Reproducible Data Analysis for Genomics
Strozzi, Francesco, Janssen, Roel, Wurmus, Ricardo, Crusoe, Michael R, Githinji, George, Di Tommaso, Paolo, Belhachemi, Dominique, Möller, Steffen, Smant, Geert, de Ligt, Joep, Prins, Pjotr
Published in Methods in molecular biology (Clifton, N.J.) (2019)
Published in Methods in molecular biology (Clifton, N.J.) (2019)
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Genomic analysis of respiratory syncytial virus infections in households and utility in inferring who infects the infant
Agoti, Charles N., Phan, My V. T., Munywoki, Patrick K., Githinji, George, Medley, Graham F., Cane, Patricia A., Kellam, Paul, Cotten, Matthew, Nokes, D. James
Published in Scientific reports (11.07.2019)
Published in Scientific reports (11.07.2019)
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A systematic review of Hepatitis B virus (HBV) prevalence and genotypes in Kenya: Data to inform clinical care and health policy
Louise O Downs, Cori Campbell, Paul Yonga, George Githinji, M Azim Ansari, Philippa C Matthews, Anthony O Etyang
Published in PLOS global public health (01.01.2023)
Published in PLOS global public health (01.01.2023)
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Symptom prevalence and secondary attack rate of SARS-CoV-2 in rural Kenyan households: A prospective cohort study
Gallagher, Katherine E, Nyiro, Joyce, Agoti, Charles N, Maitha, Eric, Nyagwange, James, Karani, Angela, Bottomley, Christian, Murunga, Nickson, Githinji, George, Mutunga, Martin, Ochola-Oyier, Lynette Isabella, Kombe, Ivy, Nyaguara, Amek, Kagucia, E Wangeci, Warimwe, George, Agweyu, Ambrose, Tsofa, Benjamin, Bejon, Philip, Scott, J Anthony G, Nokes, David James
Published in Influenza and other respiratory viruses (01.09.2023)
Published in Influenza and other respiratory viruses (01.09.2023)
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Prognostic indicators of life-threatening malaria are associated with distinct parasite variant antigen profiles
Warimwe, George M, Fegan, Gregory, Musyoki, Jennifer N, Newton, Charles R J C, Opiyo, Michael, Githinji, George, Andisi, Cheryl, Menza, Francis, Kitsao, Barnes, Marsh, Kevin, Bull, Peter C
Published in Science translational medicine (11.04.2012)
Published in Science translational medicine (11.04.2012)
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Detection of a SARS-CoV-2 Beta-like variant in coastal Kenya after more than a year of disappearance
Lambisia, Arnold W., U. Nyiro, Joyce, M. Morobe, John, Makori, Timothy N., Mburu, Maureen W., Ndwiga, Leonard, Moraa, Edidah O., Musyoki, Jennifer, Murunga, Nickson, Bejon, Philip, Ochola-Oyier, Lynette Isabella, Nokes, D. James, Agoti, Charles N., Githinji, George
Published in Wellcome open research (2023)
Published in Wellcome open research (2023)
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Genomic epidemiology of human adenovirus F40 and F41 in coastal Kenya: A retrospective hospital-based surveillance study (2013–2022)
Lambisia, Arnold W, Makori, Timothy O, Mutunga, Martin, Cheruiyot, Robinson, Murunga, Nickson, Quick, Joshua, Githinji, George, Nokes, D James, Houldcroft, Charlotte J, Agoti, Charles N
Published in Virus evolution (2023)
Published in Virus evolution (2023)
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SARS-CoV-2 Omicron variant of concern in the Seychelles: Introduction and spread
Morobe, John Mwita, Pool, Brigitte, Marie, Lina, Didon, Dwayne, Lambisia, Arnold W., Makori, Timothy, Mohammed, Khadija Said, Ndwiga, Leonard, Mburu, Maureen W., Moraa, Edidah, Murunga, Nickson, Mwanga, Mike, Musyoki, Jennifer, Moturi, Angela K., Namulondo, Joyce, Tembo, Susan Zimba, Ogendi, Edwin, Balde, Thierno, Dratibi, Fred Athanasius, Ali Ahmed, Yahaya, Gumede, Nicksy, Achilla, Rachel A., Borus, Peter K., Wanjohi, Dorcas W., Tessema, Sofonias K., Mwangangi, Joseph, Bejon, Philip, Nokes, D. James, Ochola-Oyier, Lynette Isabella, Githinji, George, Biscornet, Leon, Agoti, Charles N.
Published in Wellcome open research (2023)
Published in Wellcome open research (2023)
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Characterising paediatric mortality during and after acute illness in Sub-Saharan Africa and South Asia: a secondary analysis of the CHAIN cohort using a machine learning approach
Diallo, Abdoulaye Hama, Sayeem Bin Shahid, Abu Sadat Mohammad, Khan, Ali Fazal, Saleem, Ali Faisal, Singa, Benson O., Gnoumou, Blaise Siezanga, Tigoi, Caroline, Otieno, Catherine Achieng, Bourdon, Celine, Oduol, Chris Odhiambo, Lancioni, Christina L., Manyasi, Christine, McGrath, Christine J., Maronga, Christopher, Lwanga, Christopher, Brals, Daniella, Ahmed, Dilruba, Mondal, Dinesh, Denno, Donna M., Mangale, Dorothy I., Chimezi, Emmanuel, Mbale, Emmie, Mupere, Ezekiel, Mamun, Gazi Md. Salahuddin, Ouedraogo, Issaka, Githinji, George, Berkley, James A., Njirammadzi, Jenala, Mukisa, John, Thitiri, Johnstone, Haggstrom, Jonas, Carreon, Joseph D., Walson, Judd L., Jemutai, Julie, Tickell, Kirkby D., Shahrin, Lubaba, Mallewa, MacPherson, Hossain, Md. Iqbal, Chisti, Mohammod Jobayer, Timbwa, Molly, Mburu, Moses, Ngari, Moses M., Ngao, Narshion, Aber, Peace, Harawa, Philliness Prisca, Sukhtankar, Priya, Bandsma, Robert H.J., Bamouni, Roseline Maimouna, Molyneux, Sassy, Feldman, Sergey, Mwaringa, Shalton, Shaima, Shamsun Nahar, Ali, Syed Asad, Afsana, Syeda Momena, Banu, Syera, Ahmed, Tahmeed, Voskuijl, Wieger P., Kazi, Zaubina
Published in EClinicalMedicine (01.03.2023)
Published in EClinicalMedicine (01.03.2023)
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Temporal distribution and clinical characteristics of the Alpha, Delta and Omicron SARS-CoV-2 variants of concern in Laikipia, Kenya: institutional and community-based genomic surveillance
W. Lambisia, Arnold, H. Mudhune, Godfrey, M. Morobe, John, Said Mohammed, Khadija, O. Makori, Timothy, Ndwiga, Leonard, W. Mburu, Maureen, O. Moraa, Edidah, Musyoki, Jeniffer, Murunga, Nickson, N. Waliaula, Isaac, K. Mumelo, Arthur, Bejon, Philip, Isabella Ochola-Oyier, Lynette, Githinji, George, Nokes, James, Agoti, Charles
Published in Wellcome open research (2022)
Published in Wellcome open research (2022)
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Temporal distribution and clinical characteristics of the Alpha, Delta and Omicron SARS-CoV-2 variants of concern in Laikipia, Kenya: institutional and community-based genomic surveillance
W. Lambisia, Arnold, H. Mudhune, Godfrey, M. Morobe, John, Said Mohammed, Khadija, O. Makori, Timothy, Ndwiga, Leonard, W. Mburu, Maureen, O. Moraa, Edidah, Musyoki, Jeniffer, Murunga, Nickson, N. Waliaula, Isaac, K. Mumelo, Arthur, Bejon, Philip, Isabella Ochola-Oyier, Lynette, Githinji, George, Nokes, James, Agoti, Charles
Published in Wellcome open research (2022)
Published in Wellcome open research (2022)
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Abdoulaye Hama Diallo, Abu Sadat Mohammad Sayeem Bin Shahid, Ali Fazal Khan, Ali Faisal Saleem, Benson O. Singa, Blaise Siezanga Gnoumou, Caroline Tigoi, Catherine Achieng Otieno, Celine Bourdon, Chris Odhiambo Oduol, Christina L. Lancioni, Christine Manyasi, Christine J. McGrath, Christopher Maronga, Christopher Lwanga, Daniella Brals, Dilruba Ahmed, Dinesh Mondal, Donna M. Denno, Dorothy I. Mangale, Emmanuel Chimezi, Emmie Mbale, Ezekiel Mupere, Gazi Md. Salahuddin Mamun, Issaka Ouedraogo, George Githinji, James A. Berkley, Jenala Njirammadzi, John Mukisa, Johnstone Thitiri, Jonas Haggstrom, Joseph D. Carreon, Judd L. Walson, Julie Jemutai, Kirkby D. Tickell, Lubaba Shahrin, MacPherson Mallewa, Md. Iqbal Hossain, Mohammod Jobayer Chisti, Molly Timbwa, Moses Mburu, Moses M. Ngari, Narshion Ngao, Peace Aber, Philliness Prisca Harawa, Priya Sukhtankar, Robert H.J. Bandsma, Roseline Maimouna Bamouni, Sassy Molyneux, Sergey Feldman, Shalton Mwaringa, Shamsun Nahar Shaima, Syed Asad Ali, Syeda Momena Afsana, Syera Banu, Tahmeed Ahmed, Wieger P. Voskuijl, Zaubina Kazi
Published in EClinicalMedicine (01.03.2023)
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Published in EClinicalMedicine (01.03.2023)
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Epidemiological and evolutionary dynamics of influenza B virus in coastal Kenya as revealed by genomic analysis of strains sampled over a single season
Nyasimi, Festus M, Owuor, David Collins, Ngoi, Joyce M, Mwihuri, Alexander G, Otieno, Grieven P, Otieno, James R, Githinji, George, Nyiro, Joyce U, Nokes, David James, Agoti, Charles N
Published in Virus evolution (01.07.2020)
Published in Virus evolution (01.07.2020)
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