Items where Author or Contributor is "Cotten, Matthew"

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Number of items: 48.

2022

Agoti, Charles N; Ochola-Oyier, Lynette Isabella; Dellicour, Simon; Mohammed, Khadija Said; Lambisia, Arnold W; de Laurent, Zaydah R; Morobe, John M; Mburu, Maureen W; Omuoyo, Donwilliams O; Ongera, Edidah M; +26 more... Ndwiga, Leonard; Maitha, Eric; Kitole, Benson; Suleiman, Thani; Mwakinangu, Mohamed; Nyambu, John K; Otieno, John; Salim, Barke; Musyoki, Jennifer; Murunga, Nickson; Otieno, Edward; Kiiru, John N; Kasera, Kadondi; Amoth, Patrick; Mwangangi, Mercy; Aman, Rashid; Kinyanjui, Samson; Warimwe, George; Phan, My; Agweyu, Ambrose; Cotten, Matthew; Barasa, Edwine; Tsofa, Benjamin; Nokes, D James; Bejon, Philip; Githinji, George; (2022) Transmission networks of SARS-CoV-2 in Coastal Kenya during the first two waves: A retrospective genomic study. eLife, 11. ISSN 2050-084X DOI: https://doi.org/10.7554/eLife.71703
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Bwogi, Josephine; Lutalo, Tom; Tushabe, Phionah; Bukenya, Henry; Eliku, James Peter; Ssewanyana, Isaac; Nabadda, Susan; Nsereko, Christopher; Cotten, Matthew; Downing, Robert; +4 more... Lutwama, Julius; Kaleebu, Pontiano; EPI Laboratory team; UVRI -COVID 19 Technical team; (2022) Field evaluation of the performance of seven Antigen Rapid diagnostic tests for the diagnosis of SARs-CoV-2 virus infection in Uganda. PloS one, 17 (5). e0265334-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0265334
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Lubinski, Bailey; Frazier, Laura E; Phan, My VT; Bugembe, Daniel L; Cunningham, Jessie L; Tang, Tiffany; Daniel, Susan; Cotten, Matthew; Jaimes, Javier A; Whittaker, Gary R; (2022) Spike Protein Cleavage-Activation in the Context of the SARS-CoV-2 P681R Mutation: an Analysis from Its First Appearance in Lineage A.23.1 Identified in Uganda. Microbiol Spectrum. e0151422-. DOI: https://doi.org/10.1128/spectrum.01514-22
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Phan, My VT; Agoti, Charles N; Munywoki, Patrick K; Otieno, Grieven P; Ngama, Mwanajuma; Kellam, Paul; Cotten, Matthew; Nokes, D James; (2022) Identification of missed viruses by metagenomic sequencing of clinical respiratory samples from Kenya. Scientific reports, 12 (1). 202-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-021-03987-1
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2021

Allesøe, Rosa L; Lemvigh, Camilla K; Phan, My VT; Clausen, Philip TLC; Florensa, Alfred F; Koopmans, Marion PG; Lund, Ole; Cotten, Matthew; (2021) Automated download and clean-up of family-specific databases for kmer-based virus identification. Bioinformatics (Oxford, England), 37 (5). pp. 705-710. ISSN 1367-4803 DOI: https://doi.org/10.1093/bioinformatics/btaa857
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Bugembe, Daniel Lule; Phan, My VT; Abias, Abe G; Ayei, James; Deng, Lul Lojok; Lako, Richard Lino Loro; Rumunu, John; Kaleebu, Pontiano; Wamala, Joseph Francis; Hm, Juma John; +3 more... Lodiongo, Dennis Kenyi; Bunga, Sudhir; Cotten, Matthew; (2021) SARS-CoV-2 Variants, South Sudan, January-March 2021. Emerging Infectious Diseases, 27 (12). pp. 3133-3136. ISSN 1080-6040 DOI: https://doi.org/10.3201/eid2712.211488
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Bugembe, Daniel Lule; Phan, My VT; Ssewanyana, Isaac; Semanda, Patrick; Nansumba, Hellen; Dhaala, Beatrice; Nabadda, Susan; O'Toole, Áine Niamh; Rambaut, Andrew; Kaleebu, Pontiano; +1 more... Cotten, Matthew; (2021) Emergence and spread of a SARS-CoV-2 lineage A variant (A.23.1) with altered spike protein in Uganda. Nature microbiology, 6 (8). pp. 1094-1101. ISSN 2058-5276 DOI: https://doi.org/10.1038/s41564-021-00933-9
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Cotten, Matthew; Lule Bugembe, Dan; Kaleebu, Pontiano; V T Phan, My; (2021) Alternate primers for whole-genome SARS-CoV-2 sequencing. Virus evolution, 7 (1). veab006-. ISSN 2057-1577 DOI: https://doi.org/10.1093/ve/veab006
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Lambisia, Arnold W; Phan, My VT; de Laurent, Zaydah R; Cotten, Matthew; Nokes, D James; Agoti, Charles N; (2021) Near-Complete Genome Sequences of Eight Human Astroviruses Recovered from Diarrheal Stool Samples of Hospitalized Children in Coastal Kenya in 2019. Microbiology resource announcements, 10 (15). e00162-e00121. ISSN 2576-098X DOI: https://doi.org/10.1128/MRA.00162-21
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Lutalo, Tom; Nalumansi, Aminah; Olara, Denis; Kayiwa, John; Ogwang, Bernard; Odwilo, Emmanuel; Watera, Christine; Balinandi, Stephen; Kiconco, Jocelyn; Nakaseegu, Joweria; +10 more... Serwanga, Jennifer; Kikaire, Bernard; Ssemwanga, Deogratius; Abiko, Brendah; Nsereko, Christopher; Cotten, Matthew; Buule, Joshua; Lutwama, Julius; Downing, Robert; Kaleebu, Pontiano; (2021) Evaluation of the performance of 25 SARS-CoV-2 serological rapid diagnostic tests using a reference panel of plasma specimens at the Uganda Virus Research Institute. International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases, 112. pp. 281-287. ISSN 1201-9712 DOI: https://doi.org/10.1016/j.ijid.2021.09.020
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Roach, Michael; Cantu, Adrian; Vieri, Melissa Krizia; Cotten, Matthew; Kellam, Paul; Phan, My; Hoek, Lia van der; Mandro, Michel; Tepage, Floribert; Mambandu, Germain; +5 more... Musinya, Gisele; Laudisoit, Anne; Colebunders, Robert; Edwards, Robert; Mokili, John L; (2021) No Evidence Known Viruses Play a Role in the Pathogenesis of Onchocerciasis-Associated Epilepsy. An Explorative Metagenomic Case-Control Study. Pathogens (Basel, Switzerland), 10 (7). p. 787. ISSN 2076-0817 DOI: https://doi.org/10.3390/pathogens10070787
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Wilkinson, Eduan; Giovanetti, Marta; Tegally, Houriiyah; San, James E; Lessells, Richard; Cuadros, Diego; Martin, Darren P; Rasmussen, David A; Zekri, Abdel-Rahman N; Sangare, Abdoul K; +292 more... Ouedraogo, Abdoul-Salam; Sesay, Abdul K; Priscilla, Abechi; Kemi, Adedotun-Sulaiman; Olubusuyi, Adewunmi M; Oluwapelumi, Adeyemi OO; Hammami, Adnène; Amuri, Adrienne A; Sayed, Ahmad; Ouma, Ahmed EO; Elargoubi, Aida; Ajayi, Nnennaya A; Victoria, Ajogbasile F; Kazeem, Akano; George, Akpede; Trotter, Alexander J; Yahaya, Ali A; Keita, Alpha K; Diallo, Amadou; Kone, Amadou; Souissi, Amal; Chtourou, Amel; Gutierrez, Ana V; Page, Andrew J; Vinze, Anika; Iranzadeh, Arash; Lambisia, Arnold; Ismail, Arshad; Rosemary, Audu; Sylverken, Augustina; Femi, Ayoade; Ibrahimi, Azeddine; Marycelin, Baba; Oderinde, Bamidele S; Bolajoko, Bankole; Dhaala, Beatrice; Herring, Belinda L; Njanpop-Lafourcade, Berthe-Marie; Kleinhans, Bronwyn; McInnis, Bronwyn; Tegomoh, Bryan; Brook, Cara; Pratt, Catherine B; Scheepers, Cathrine; Akoua-Koffi, Chantal G; Agoti, Charles N; Peyrefitte, Christophe; Daubenberger, Claudia; Morang'a, Collins M; Nokes, D James; Amoako, Daniel G; Bugembe, Daniel L; Park, Danny; Baker, David; Doolabh, Deelan; Ssemwanga, Deogratius; Tshiabuila, Derek; Bassirou, Diarra; Amuzu, Dominic SY; Goedhals, Dominique; Omuoyo, Donwilliams O; Maruapula, Dorcas; Foster-Nyarko, Ebenezer; Lusamaki, Eddy K; Simulundu, Edgar; Ong'era, Edidah M; Ngabana, Edith N; Shumba, Edwin; El Fahime, Elmostafa; Lokilo, Emmanuel; Mukantwari, Enatha; Philomena, Eromon; Belarbi, Essia; Simon-Loriere, Etienne; Anoh, Etilé A; Leendertz, Fabian; Ajili, Faida; Enoch, Fakayode O; Wasfi, Fares; Abdelmoula, Fatma; Mosha, Fausta S; Takawira, Faustinos T; Derrar, Fawzi; Bouzid, Feriel; Onikepe, Folarin; Adeola, Fowotade; Muyembe, Francisca M; Tanser, Frank; Dratibi, Fred A; Mbunsu, Gabriel K; Thilliez, Gaetan; Kay, Gemma L; Githinji, George; van Zyl, Gert; Awandare, Gordon A; Schubert, Grit; Maphalala, Gugu P; Ranaivoson, Hafaliana C; Lemriss, Hajar; Anise, Happi; Abe, Haruka; Karray, Hela H; Nansumba, Hellen; Elgahzaly, Hesham A; Gumbo, Hlanai; Smeti, Ibtihel; Ayed, Ikhlas B; Odia, Ikponmwosa; Ben Boubaker, Ilhem Boutiba; Gaaloul, Imed; Gazy, Inbal; Mudau, Innocent; Ssewanyana, Isaac; Konstantinus, Iyaloo; Lekana-Douk, Jean B; Makangara, Jean-Claude C; Tamfum, Jean-Jacques M; Heraud, Jean-Michel; Shaffer, Jeffrey G; Giandhari, Jennifer; Li, Jingjing; Yasuda, Jiro; Mends, Joana Q; Kiconco, Jocelyn; Morobe, John M; Gyapong, John O; Okolie, Johnson C; Kayiwa, John T; Edwards, Johnathan A; Gyamfi, Jones; Farah, Jouali; Nakaseegu, Joweria; Ngoi, Joyce M; Namulondo, Joyce; Andeko, Julia C; Lutwama, Julius J; O'Grady, Justin; Siddle, Katherine; Adeyemi, Kayode T; Tumedi, Kefentse A; Said, Khadija M; Hae-Young, Kim; Duedu, Kwabena O; Belyamani, Lahcen; Fki-Berrajah, Lamia; Singh, Lavanya; Martins, Leonardo de O; Tyers, Lynn; Ramuth, Magalutcheemee; Mastouri, Maha; Aouni, Mahjoub; El Hefnawi, Mahmoud; Matsheka, Maitshwarelo I; Kebabonye, Malebogo; Diop, Mamadou; Turki, Manel; Paye, Marietou; Nyaga, Martin M; Mareka, Mathabo; Damaris, Matoke-Muhia; Mburu, Maureen W; Mpina, Maximillian; Nwando, Mba; Owusu, Michael; Wiley, Michael R; Youtchou, Mirabeau T; Ayekaba, Mitoha O; Abouelhoda, Mohamed; Seadawy, Mohamed G; Khalifa, Mohamed K; Sekhele, Mooko; Ouadghiri, Mouna; Diagne, Moussa M; Mwenda, Mulenga; Allam, Mushal; Phan, My VT; Abid, Nabil; Touil, Nadia; Rujeni, Nadine; Kharrat, Najla; Ismael, Nalia; Dia, Ndongo; Mabunda, Nedio; Hsiao, Nei-Yuan; Silochi, Nelson B; Nsenga, Ngoy; Gumede, Nicksy; Mulder, Nicola; Ndodo, Nnaemeka; Razanajatovo, Norosoa H; Iguosadolo, Nosamiefan; Judith, Oguzie; Kingsley, Ojide C; Sylvanus, Okogbenin; Peter, Okokhere; Femi, Oladiji; Idowu, Olawoye; Testimony, Olumade; Chukwuma, Omoruyi E; Ogah, Onwe E; Onwuamah, Chika K; Cyril, Oshomah; Faye, Ousmane; Tomori, Oyewale; Ondoa, Pascale; Combe, Patrice; Semanda, Patrick; Oluniyi, Paul E; Arnaldo, Paulo; Quashie, Peter K; Dussart, Philippe; Bester, Phillip A; Mbala, Placide K; Ayivor-Djanie, Reuben; Njouom, Richard; Phillips, Richard O; Gorman, Richmond; Kingsley, Robert A; Carr, Rosina AA; El Kabbaj, Saâd; Gargouri, Saba; Masmoudi, Saber; Sankhe, Safietou; Lawal, Salako B; Kassim, Samar; Trabelsi, Sameh; Metha, Samar; Kammoun, Sami; Lemriss, Sanaâ; Agwa, Sara HA; Calvignac-Spencer, Sébastien; Schaffner, Stephen F; Doumbia, Seydou; Mandanda, Sheila M; Aryeetey, Sherihane; Ahmed, Shymaa S; Elhamoumi, Siham; Andriamandimby, Soafy; Tope, Sobajo; Lekana-Douki, Sonia; Prosolek, Sophie; Ouangraoua, Soumeya; Mundeke, Steve A; Rudder, Steven; Panji, Sumir; Pillay, Sureshnee; Engelbrecht, Susan; Nabadda, Susan; Behillil, Sylvie; Budiaki, Sylvie L; van der Werf, Sylvie; Mashe, Tapfumanei; Aanniz, Tarik; Mohale, Thabo; Le-Viet, Thanh; Schindler, Tobias; Anyaneji, Ugochukwu J; Chinedu, Ugwu; Ramphal, Upasana; Jessica, Uwanibe; George, Uwem; Fonseca, Vagner; Enouf, Vincent; Gorova, Vivianne; Roshdy, Wael H; Ampofo, William K; Preiser, Wolfgang; Choga, Wonderful T; Bediako, Yaw; Naidoo, Yeshnee; Butera, Yvan; de Laurent, Zaydah R; Sall, Amadou A; Rebai, Ahmed; von Gottberg, Anne; Kouriba, Bourema; Williamson, Carolyn; Bridges, Daniel J; Chikwe, Ihekweazu; Bhiman, Jinal N; Mine, Madisa; Cotten, Matthew; Moyo, Sikhulile; Gaseitsiwe, Simani; Saasa, Ngonda; Sabeti, Pardis C; Kaleebu, Pontiano; Tebeje, Yenew K; Tessema, Sofonias K; Happi, Christian; Nkengasong, John; de Oliveira, Tulio; (2021) A year of genomic surveillance reveals how the SARS-CoV-2 pandemic unfolded in Africa. Science, 374 (6566). pp. 423-431. ISSN 0036-8075 DOI: https://doi.org/10.1126/science.abj4336
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2020

Bugembe, Daniel Lule; Kayiwa, John; Phan, My VT; Tushabe, Phiona; Balinandi, Stephen; Dhaala, Beatrice; Lexow, Jonas; Mwebesa, Henry; Aceng, Jane; Kyobe, Henry; +4 more... Ssemwanga, Deogratius; Lutwama, Julius; Kaleebu, Pontiano; Cotten, Matthew; (2020) Main Routes of Entry and Genomic Diversity of SARS-CoV-2, Uganda. EMERGING INFECTIOUS DISEASES, 26 (10). pp. 2411-2415. ISSN 1080-6040 DOI: https://doi.org/10.3201/eid2610.202575
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Kamau, Everlyn; Oketch, John W; de Laurent, Zaydah R; Phan, My VT; Agoti, Charles N; Nokes, D James; Cotten, Matthew; (2020) Correction to: Whole genome sequencing and phylogenetic analysis of human metapneumovirus strains from Kenya and Zambia. BMC genomics, 21 (1). p. 83. ISSN 1471-2164 DOI: https://doi.org/10.1186/s12864-020-6498-z
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Kamau, Everlyn; Oketch, John W; de Laurent, Zaydah R; Phan, My VT; Agoti, Charles N; Nokes, D James; Cotten, Matthew; (2020) Whole genome sequencing and phylogenetic analysis of human metapneumovirus strains from Kenya and Zambia. BMC GENOMICS, 21 (1). 5-. ISSN 1471-2164 DOI: https://doi.org/10.1186/s12864-019-6400-z
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Kinsella, Cormac M; Bart, Aldert; Deijs, Martin; Broekhuizen, Patricia; Kaczorowska, Joanna; Jebbink, Maarten F; van Gool, Tom; Cotten, Matthew; van der Hoek, Lia; (2020) Entamoeba and Giardia parasites implicated as hosts of CRESS viruses. Nature communications, 11 (1). 4620-. ISSN 2041-1723 DOI: https://doi.org/10.1038/s41467-020-18474-w
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Nalumansi, Aminah; Lutalo, Tom; Kayiwa, John; Watera, Christine; Balinandi, Stephen; Kiconco, Jocelyn; Nakaseegu, Joweria; Olara, Denis; Odwilo, Emmanuel; Serwanga, Jennifer; +12 more... Kikaire, Bernard; Ssemwanga, Deogratius; Nabadda, Susan; Ssewanyana, Isaac; Atwine, Diane; Mwebesa, Henry; Bosa, Henry Kyobe; Nsereko, Christopher; Cotten, Matthew; Downing, Robert; Lutwama, Julius; Kaleebu, Pontiano; (2020) Field evaluation of the performance of a SARS-CoV-2 antigen rapid diagnostic test in Uganda using nasopharyngeal samples. International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases, 104. pp. 282-286. ISSN 1201-9712 DOI: https://doi.org/10.1016/j.ijid.2020.10.073
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Nieuwenhuijse, David F; Oude Munnink, Bas B; Phan, My VT; Global Sewage Surveillance project consortium; Munk, Patrick; Venkatakrishnan, Shweta; Aarestrup, Frank M; Cotten, Matthew; Koopmans, Marion PG; (2020) Setting a baseline for global urban virome surveillance in sewage. Scientific reports, 10 (1). p. 13748. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-020-69869-0
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Phan, My VT; Mendonca Melo, Mariana; van Nood, Els; Aron, Georgina; Kreeft-Voermans, Jolanda JC; Koopmans, Marion PG; Reusken, Chantal; GeurtsvanKessel, Corine H; Cotten, Matthew; (2020) Shedding of Yellow Fever Virus From an Imported Case in the Netherlands After Travel to Brazil. OPEN FORUM INFECTIOUS DISEASES, 7 (2). ofaa020-. ISSN 2328-8957 DOI: https://doi.org/10.1093/ofid/ofaa020
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2019

Agoti, Charles N; Phan, My VT; Munywoki, Patrick K; Githinji, George; Medley, Graham F; Cane, Patricia A; Kellam, Paul; Cotten, Matthew; Nokes, D James; (2019) Genomic analysis of respiratory syncytial virus infections in households and utility in inferring who infects the infant. Scientific reports, 9 (1). 10076-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-019-46509-w
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Phan, My VT; Arron, Georgina; GeurtsvanKessel, Corine H; Huisman, Robin C; Molenkamp, Richard; Koopmans, Marion PG; Cotten, Matthew; (2019) Complete Genome Characterization of Eight Human Parainfluenza Viruses from the Netherlands. MICROBIOLOGY RESOURCE ANNOUNCEMENTS, 8 (15). ISSN 2576-098X DOI: https://doi.org/10.1128/MRA.00125-19
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Strubbia, Sofia; Phan, My VT; Schaeffer, Julien; Koopmans, Marion; Cotten, Matthew; Le Guyader, Françoise S; (2019) Characterization of Norovirus and Other Human Enteric Viruses in Sewage and Stool Samples Through Next-Generation Sequencing. FOOD AND ENVIRONMENTAL VIROLOGY, 11 (4). pp. 400-409. ISSN 1867-0334 DOI: https://doi.org/10.1007/s12560-019-09402-3
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Tapinos, Avraam; Constantinides, Bede; Phan, My VT; Kouchaki, Samaneh; Cotten, Matthew; Robertson, David L; (2019) The Utility of Data Transformation for Alignment, De Novo Assembly and Classification of Short Read Virus Sequences. VIRUSES-BASEL, 11 (5). p. 394. ISSN 1999-4915 DOI: https://doi.org/10.3390/v11050394
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2018

Kiyuka, Patience K; Agoti, Charles N; Munywoki, Patrick K; Njeru, Regina; Bett, Anne; Otieno, James R; Otieno, Grieven P; Kamau, Everlyn; Clark, Taane G; van der Hoek, Lia; +3 more... Kellam, Paul; Nokes, D James; Cotten, Matthew; (2018) Human Coronavirus NL63 Molecular Epidemiology and Evolutionary Patterns in Rural Coastal Kenya. The Journal of infectious diseases, 217 (11). pp. 1728-1739. ISSN 0022-1899 DOI: https://doi.org/10.1093/infdis/jiy098
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Otieno, JR; Kamau, EM; Oketch, JW; Ngoi, JM; Gichuki, AM; Binter, Š; Otieno, GP; Ngama, M; Agoti, CN; Cane, PA; +4 more... Kellam, P; Cotten, M; Lemey, P; Nokes, DJ; (2018) Whole genome analysis of local Kenyan and global sequences unravels the epidemiological and molecular evolutionary dynamics of RSV genotype ON1 strains. Virus Evolution, 4 (2). vey027. ISSN 2057-1577 DOI: https://doi.org/10.1093/ve/vey027
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Phan, My VT; Ngo Tri, Tue; Hong Anh, Pham; Baker, Stephen; Kellam, Paul; Cotten, Matthew; (2018) Identification and characterization of Coronaviridae genomes from Vietnamese bats and rats based on conserved protein domains. VIRUS EVOLUTION, 4 (2). vey035-. ISSN 2057-1577 DOI: https://doi.org/10.1093/ve/vey035
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Phan, My VT; Schapendonk, Claudia ME; Oude Munnink, Bas B; Koopmans, Marion PG; de Swart, Rik L; Cotten, Matthew; (2018) Complete Genome Sequences of Six Measles Virus Strains. Microbiology Resource Announcements, 6 (13). e00184-18. ISSN 2576-098X DOI: https://doi.org/10.1128/genomeA.00184-18
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Said Mohammed, Khadija; Kibinge, Nelson; Prins, Pjotr; Agoti, Charles N; Cotten, Matthew; Nokes, DJ; Brand, Samuel; Githinji, George; (2018) Evaluating the performance of tools used to call minority variants from whole genome short-read data. Wellcome open research, 3. p. 21. ISSN 2398-502X DOI: https://doi.org/10.12688/wellcomeopenres.13538.2
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de Silva, Thushan I; Leligdowicz, Aleksandra; Carlson, Jonathan; Garcia-Knight, Miguel; Onyango, Clayton; Miller, Nicholas; Yindom, Louis-Marie; Hué, Stephane; Jaye, Assan; Dong, Tao; +2 more... Cotten, Matthew; Rowland-Jones, Sarah L; (2018) HLA-associated polymorphisms in the HIV-2 capsid highlight key differences between HIV-1 and HIV-2 immune adaptation. AIDS (London, England), 32 (6). pp. 709-714. ISSN 0269-9370 DOI: https://doi.org/10.1097/QAD.0000000000001753
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2017

Agoti, Charles N; Munywoki, Patrick K; Phan, My VT; Otieno, James R; Kamau, Everlyn; Bett, Anne; Kombe, Ivy; Githinji, George; Medley, Graham F; Cane, Patricia A; +3 more... Kellam, Paul; Cotten, Matthew; Nokes, D James; (2017) Transmission patterns and evolution of respiratory syncytial virus in a community outbreak identified by genomic analysis. Virus evolution, 3 (1). vex006-. ISSN 2057-1577 DOI: https://doi.org/10.1093/ve/vex006
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Dolle, Dirk D; Liu, Zhicheng; Cotten, Matthew; Simpson, Jared T; Iqbal, Zamin; Durbin, Richard; McCarthy, Shane A; Keane, Thomas M; (2017) Using reference-free compressed data structures to analyze sequencing reads from thousands of human genomes. GENOME RESEARCH, 27 (2). pp. 300-309. ISSN 1088-9051 DOI: https://doi.org/10.1101/gr.211748.116
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Oude Munnink, Bas B; Phan, My VT; VIZIONS Consortium; Simmonds, Peter; Koopmans, Marion PG; Kellam, Paul; van der Hoek, Lia; Cotten, Matthew; (2017) Characterization of Posa and Posa-like virus genomes in fecal samples from humans, pigs, rats, and bats collected from a single location in Vietnam. VIRUS EVOLUTION, 3 (2). vex022-. ISSN 2057-1577 DOI: https://doi.org/10.1093/ve/vex022
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2016

Agoti, Charles N; Kiyuka, Patience K; Kamau, Evelyne; Munywoki, Patrick K; Bett, Anne; van der Hoek, Lia; Kellam, Paul; Nokes, D James; Cotten, Matthew; (2016) Human Rhinovirus B and C Genomes from Rural Coastal Kenya. Microbiology Resource Announcements, 4 (4). ISSN 2576-098X DOI: https://doi.org/10.1128/genomeA.00751-16
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Diallo, Boubacar; Sissoko, Daouda; Loman, Nicholas J; Bah, Hadja Aïssatou; Bah, Hawa; Worrell, Mary Claire; Conde, Lya Saidou; Sacko, Ramata; Mesfin, Samuel; Loua, Angelo; +22 more... Kalonda, Jacques Katomba; Erondu, Ngozi A; Dahl, Benjamin A; Handrick, Susann; Goodfellow, Ian; Meredith, Luke W; Cotten, Matthew; Jah, Umaru; Guetiya Wadoum, Raoul Emeric; Rollin, Pierre; Magassouba, N'Faly; Malvy, Denis; Anglaret, Xavier; Carroll, Miles W; Aylward, Raymond Bruce; Djingarey, Mamoudou Harouna; Diarra, Abdoulaye; Formenty, Pierre; Keïta, Sakoba; Günther, Stephan; Rambaut, Andrew; Duraffour, Sophie; (2016) Resurgence of Ebola Virus Disease in Guinea Linked to a Survivor With Virus Persistence in Seminal Fluid for More Than 500 Days. Clinical infectious diseases, 63 (10). pp. 1353-1356. ISSN 1058-4838 DOI: https://doi.org/10.1093/cid/ciw601
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Fraaij, Pieter LA; Wildschut, Enno D; Houmes, Robert J; Swaan, Corien M; Hoebe, Christian J; de Jonge, HCC; Tolsma, Paulien; de Kleer, Isme; Pas, Suzan D; Oude Munnink, Bas B; +10 more... Phan, My VT; Bestebroer, Theo M; Roosenhoff, R Shanty; van Kampen, Jeroen JA; Cotten, Matthew; Beerens, Nancy; Fouchier, Ron AM; van den Kerkhof, Johannes H; Timen, Aura; Koopmans, Marion P; (2016) Severe acute respiratory infection caused by swine influenza virus in a child necessitating extracorporeal membrane oxygenation (ECMO), the Netherlands, October 2016. EUROSURVEILLANCE, 21 (48). pp. 8-10. ISSN 1560-7917 DOI: https://doi.org/10.2807/1560-7917.ES.2016.21.48.30416
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Oude Munnink, Bas B; Phan, My VT; van der Hoek, Lia; Kellam, Paul; Cotten, Matthew; VIZIONS Consortium; (2016) Genome Sequences of a Novel Vietnamese Bat Bunyavirus. Microbiology Resource Announcements, 4 (6). e01366-16. ISSN 2576-098X DOI: https://doi.org/10.1128/genomeA.01366-16
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Phan, My VT; Anh, Pham Hong; Cuong, Nguyen Van; Munnink, Bas B Oude; van der Hoek, Lia; My, Phuc Tran; Tri, Tue Ngo; Bryant, Juliet E; Baker, Stephen; Thwaites, Guy; +5 more... Woolhouse, Mark; Kellam, Paul; Rabaa, Maia A; Cotten, Matthew; VIZIONS Consortium; (2016) Unbiased whole-genome deep sequencing of human and porcine stool samples reveals circulation of multiple groups of rotaviruses and a putative zoonotic infection. Virus evolution, 2 (2). vew027-. ISSN 2057-1577 DOI: https://doi.org/10.1093/ve/vew027
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Zumla, Alimuddin; Dar, Osman; Kock, Richard; Muturi, Matthew; Ntoumi, Francine; Kaleebu, Pontiano; Eusebio, Macete; Mfinanga, Sayoki; Bates, Matthew; Mwaba, Peter; +8 more... Ansumana, Rashid; Khan, Mishal; Alagaili, Abdulaziz N; Cotten, Matthew; Azhar, Esam I; Maeurer, Markus; Ippolito, Giuseppe; Petersen, Eskild; (2016) Taking forward a 'One Health' approach for turning the tide against the Middle East respiratory syndrome coronavirus and other zoonotic pathogens with epidemic potential. International journal of infectious diseases, 47. pp. 5-9. ISSN 1201-9712 DOI: https://doi.org/10.1016/j.ijid.2016.06.012
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2015

Rabaa, Maia A; Tue, Ngo Tri; Phuc, Tran My; Carrique-Mas, Juan; Saylors, Karen; Cotten, Matthew; Bryant, Juliet E; Nghia, Ho Dang Trung; Cuong, Nguyen Van; Pham, Hong Anh; +26 more... Berto, Alessandra; Phat, Voong Vinh; Dung, Tran Thi Ngoc; Bao, Long Hoang; Hoa, Ngo Thi; Wertheim, Heiman; Nadjm, Behzad; Monagin, Corina; van Doorn, H Rogier; Rahman, Motiur; Tra, My Phan Vu; Campbell, James I; Boni, Maciej F; Tam, Pham Thi Thanh; van der Hoek, Lia; Simmonds, Peter; Rambaut, Andrew; Toan, Tran Khanh; Van Vinh Chau, Nguyen; Hien, Tran Tinh; Wolfe, Nathan; Farrar, Jeremy J; Thwaites, Guy; Kellam, Paul; Woolhouse, Mark EJ; Baker, Stephen; (2015) The Vietnam Initiative on Zoonotic Infections (VIZIONS): A Strategic Approach to Studying Emerging Zoonotic Infectious Diseases. EcoHealth, 12 (4). pp. 726-735. ISSN 1612-9202 DOI: https://doi.org/10.1007/s10393-015-1061-0
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2014

Cotten, Matthew; Petrova, Velislava; Phan, My VT; Rabaa, Maia A; Watson, Simon J; Ong, Swee Hoe; Kellam, Paul; Baker, Stephen; (2014) Deep sequencing of norovirus genomes defines evolutionary patterns in an urban tropical setting. Journal of virology, 88 (19). pp. 11056-11069. ISSN 0022-538X DOI: https://doi.org/10.1128/JVI.01333-14
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2012

de Silva, Thushan I; van Tienen, Carla; Onyango, Clayton; Jabang, Abdoulie; Vincent, Tim; Loeff, Maarten F Schim van der; Coutinho, Roel A; Jaye, Assan; Rowland-Jones, Sarah; Whittle, Hilton; +2 more... Cotten, Matthew; Hué, Stéphane; (2012) Population dynamics of HIV-2 in rural West Africa: comparison with HIV-1 and ongoing transmission at the heart of the epidemic. AIDS (London, England), 27 (1). pp. 125-134. ISSN 0269-9370 DOI: https://doi.org/10.1097/QAD.0b013e32835ab12c Full text not available from this repository.

2011

de Silva, Thushan I; Aasa-Chapman, Marlén; Cotten, Matthew; Hué, Stéphane; Robinson, James; Bibollet-Ruche, Frederic; Sarge-Njie, Ramu; Berry, Neil; Jaye, Assan; Aaby, Peter; +3 more... Whittle, Hilton; Rowland-Jones, Sarah; Weiss, Robin; (2011) Potent autologous and heterologous neutralizing antibody responses occur in HIV-2 infection across a broad range of infection outcomes. Journal of virology, 86 (2). pp. 930-946. ISSN 0022-538X DOI: https://doi.org/10.1128/JVI.06126-11 Full text not available from this repository.

2010

Holder, Beth; Miles, David JC; Kaye, Steve; Crozier, Sarah; Mohammed, Nuredin Ibrahim; Duah, Nancy O; Roberts, Elishia; Ojuola, Olubukola; Palmero, Melba S; Touray, Ebrima S; +5 more... Waight, Pauline; Cotten, Matthew; Rowland-Jones, Sarah; van der Sande, Marianne; Whittle, Hilton; (2010) Epstein-Barr virus but not cytomegalovirus is associated with reduced vaccine antibody responses in Gambian infants. PloS one, 5 (11). e14013-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0014013
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Jobarteh, Modou; Malfroy, Marine; Peterson, Ingrid; Jeng, Adam; Sarge-Njie, Ramu; Alabi, Abraham; Peterson, Kevin; Cotten, Matt; Hall, Andrew; Rowland-Jones, Sarah; +4 more... Whittle, Hilton; Tedder, Richard; Jaye, Assan; Mendy, Maimuna; (2010) Seroprevalence of hepatitis B and C virus in HIV-1 and HIV-2 infected Gambians. Virology journal, 7 (1). 230-. ISSN 1743-422X DOI: https://doi.org/10.1186/1743-422X-7-230
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de Silva, Thushan I; Turner, Roxanne; Hué, Stéphane; Trikha, Roochi; van Tienen, Carla; Onyango, Clayton; Jaye, Assan; Foley, Brian; Whittle, Hilton; Rowland-Jones, Sarah L; +1 more... Cotten, Matthew; (2010) HIV-1 subtype distribution in the Gambia and the significant presence of CRF49_cpx, a novel circulating recombinant form. Retrovirology, 7 (1). 82-. ISSN 1742-4690 DOI: https://doi.org/10.1186/1742-4690-7-82
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This list was generated on Wed Aug 17 08:01:37 2022 BST.