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Publication Details
AFRICAN RESEARCH NEXUS
SHINING A SPOTLIGHT ON AFRICAN RESEARCH
An open dataset of Plasmodium falciparum genome variation in 7,000 worldwide samples
Wellcome Open Research, Volume 6, Article 42, Year 2021
Notification
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Description
MalariaGEN is a data-sharing network that enables groups around the world to work together on the genomic epidemiology of malaria. Here we describe a new release of curated genome variation data on 7,000 Plasmodium falciparum samples from MalariaGEN partner studies in 28 malaria-endemic countries. High-quality genotype calls on 3 million single nucleotide polymorphisms (SNPs) and short indels were produced using a standardised analysis pipeline. Copy number variants associated with drug resistance and structural variants that cause failure of rapid diagnostic tests were also analysed. Almost all samples showed genetic evidence of resistance to at least one antimalarial drug, and some samples from Southeast Asia carried markers of resistance to six commonly-used drugs. Genes expressed during the mosquito stage of the parasite life-cycle are prominent among loci that show strong geographic differentiation. By continuing to enlarge this open data resource we aim to facilitate research into the evolutionary processes affecting malaria control and to accelerate development of the surveillance toolkit required for malaria elimination. © 2021 MalariaGEN et al.
Authors & Co-Authors
Ahouidi, Ambroise Dioum
Senegal, Dakar
Centre Hospitalier Universitaire Aristide le Dantec de Dakar
Ali, Mozam
United Kingdom, Hinxton
Wellcome Sanger Institute
Almagro-Garcia, Jacob
United Kingdom, Hinxton
Wellcome Sanger Institute
Amambua-Ngwa, Alfred
United Kingdom, Hinxton
Wellcome Sanger Institute
Gambia, Banjul
Medical Research Council Laboratories Gambia
Amaratunga, Chanaki
United States, Bethesda
National Institutes of Health Nih
Amato, Roberto
United Kingdom, Hinxton
Wellcome Sanger Institute
Amenga-Etego, Lucas Naam Kayagre
Ghana, Accra
Ghana Health Service
Ghana, Accra
University of Ghana
Andagalu, Ben M.
United States, Arlington
United States Army
Anderson, Timothy J.C.
United States, San Antonio
Texas Biomedical Research Institute
Andrianaranjaka, Voahangy Hanitriniaina Isabelle
Madagascar, Antananarivo
Université D'antananarivo
Apinjoh, Tobias O.
Cameroon, Buea
University of Buea
Ariani, Cristina Valente
United Kingdom, Hinxton
Wellcome Sanger Institute
Ashley, Elizabeth A.
Thailand, Bangkok
Mahidol Oxford Tropical Medicine Research Unit
Auburn, Sarah A.
Australia, Darwin
Menzies School of Health Research
United Kingdom, Oxford
University of Oxford
Awandare, Gordon Akanzuwine
Ghana, Accra
University of Ghana
Bâ, Hampathé
Mauritania, Nouakchott
Institut National de Recherches en Santé Publique
Baraka, Vito
Tanzania
National Institute for Medical Research Tanzania
Belgium, Antwerpen
Universiteit Antwerpen
Barry, Alyssa E.
Australia, Geelong
Deakin University
Australia, Melbourne
Burnet Institute
Australia, Melbourne
Walter and Eliza Hall Institute of Medical Research
Bejon, Philip A.
Kenya, Nairobi
Wellcome Trust Research Laboratories Nairobi
Bertin, Gwladys I.
France, Marseille
Ird Institut de Recherche Pour le Developpement
Boni, Maciej F.
United Kingdom, Oxford
University of Oxford
Viet Nam, Ho Chi Minh City
Oxford University Clinical Research Unit
Borrmann, Steffen
Germany, Tubingen
Eberhard Karls Universität Tübingen
Bousema, Teun
United Kingdom, London
London School of Hygiene & Tropical Medicine
Netherlands, Nijmegen
Radboud University Medical Center
Branch, Ora Lee H.
United States, New York
Nyu Langone Health
Bull, Peter C.
Kenya, Nairobi
Wellcome Trust Research Laboratories Nairobi
United Kingdom, Cambridge
University of Cambridge
Busby, George B.J.
Unknown Affiliation
Chookajorn, Thanat
Thailand, Nakhon Pathom
Mahidol University
Chotivanich, Kesinee T.
Thailand, Nakhon Pathom
Mahidol University
Claessens, Antoine
Gambia, Banjul
Medical Research Council Laboratories Gambia
France, Paris
Inserm
Conway, David J.
United Kingdom, London
London School of Hygiene & Tropical Medicine
Craig, Alister Gordon
United Kingdom, Liverpool
Liverpool School of Tropical Medicine
Malawi, Blantyre
Malawi-liverpool-wellcome Trust Clinical Research Programme
D'Alessandro, Umberto
Gambia, Banjul
Medical Research Council Laboratories Gambia
Dama, Souleymane
Mali, Bamako
University of Sciences
Day, Nichloas P.J.
Thailand, Bangkok
Mahidol Oxford Tropical Medicine Research Unit
Denis, Brigitte B.
Malawi, Blantyre
Malawi-liverpool-wellcome Trust Clinical Research Programme
Diakité, Mahamadou M.
Mali, Bamako
University of Sciences
Djimde, Abdoulaye A.
Mali, Bamako
University of Sciences
Dolecek, Christiane
United Kingdom, Oxford
University of Oxford
Dondorp, A. M.
Thailand, Bangkok
Mahidol Oxford Tropical Medicine Research Unit
Drakeley, Chris J.
United Kingdom, London
London School of Hygiene & Tropical Medicine
Drury, Eleanor
United Kingdom, Hinxton
Wellcome Sanger Institute
Duffy, Patrick Emmet
United States, Bethesda
National Institutes of Health Nih
Echeverry, Diego Fernando
Colombia, Cali
Centro Internacional de Entrenamiento e Investigaciones Medicas
Colombia, Cali
Universidad Icesi
Egwang, Thomas Gordon
Unknown Affiliation
Erko, Berhanu
Ethiopia, Addis Ababa
Addis Ababa University
Fairhurst, Rick M.
United States, Bethesda
National Institutes of Health Nih
Faiz, Mohammad Abul
Bangladesh, Dhaka
Dev Care Foundation
Fanello, Caterina I.
Thailand, Bangkok
Mahidol Oxford Tropical Medicine Research Unit
Fukuda, Mark M.
Thailand, Bangkok
Armed Forces Research Institute of Medical Sciences, Thailand
Gamboa Vilela, Dionicia V.
Peru, Lima
Universidad Peruana Cayetano Heredia
Ghansah, Anita K.
Ghana, Accra
Csir - Institute for Scientific and Technological Information
Golassa, Lemu
Ethiopia, Addis Ababa
Addis Ababa University
Gonçalves, Sonia Morgado
United Kingdom, Hinxton
Wellcome Sanger Institute
Hamilton, William L.
United Kingdom, Hinxton
Wellcome Sanger Institute
United Kingdom, Cambridge
Cambridge University Hospitals Nhs Foundation Trust
Harrison, Gabrielle L.Abby
Australia, Melbourne
Walter and Eliza Hall Institute of Medical Research
Hart, Lee
Unknown Affiliation
Henrichs, Christa
Unknown Affiliation
Hien, Tran Tinh
Viet Nam, Ho Chi Minh City
Oxford University Clinical Research Unit
United Kingdom, Oxford
University of Oxford
Hill, Catherine Alexander
United States, West Lafayette
Purdue University
Hodgson, Abraham V.O.
Ghana, Accra
Ghana Health Service
Hubbart, Christina S.
United Kingdom, Oxford
University of Oxford
Imwong, Mallika
Thailand, Nakhon Pathom
Mahidol University
Ishengoma, Deus Simon
Tanzania
National Institute for Medical Research Tanzania
Jackson, Scott A.
United States, Athens
University of Georgia
Jacob, Christopher G.
United Kingdom, Hinxton
Wellcome Sanger Institute
Jeffery, Ben
Unknown Affiliation
Jeffreys, Anna E.
United Kingdom, Oxford
University of Oxford
Johnson, Kimberly J.
Unknown Affiliation
Jyothi, Dushyanth
United Kingdom, Hinxton
Wellcome Sanger Institute
Kamaliddin, Claire
France, Marseille
Ird Institut de Recherche Pour le Developpement
Kamau, Edwin
United States, Silver Spring
Walter Reed Army Institute of Research
Kekre, Mihir
United Kingdom, Hinxton
Wellcome Sanger Institute
Kluczyński, Krzysztof Henryk
Unknown Affiliation
Kochakarn, Theerarat
United Kingdom, Hinxton
Wellcome Sanger Institute
Thailand, Nakhon Pathom
Mahidol University
Konaté, Abibatou Andre
Cote D'ivoire, Abidjan
Université de Cocody-abidjan
Kwiatkowski, Dominic P.
United Kingdom, Hinxton
Wellcome Sanger Institute
United Kingdom, Oxford
University of Oxford
Kyaw, Myat Phone
United Kingdom, Oxford
University of Oxford
Myanmar, Yangon
University of Public Health
Lim, Pharath
United States, Bethesda
National Institutes of Health Nih
United States, Silver Spring
Medical Care Development International
Lon, Chanthap
Thailand, Bangkok
Armed Forces Research Institute of Medical Sciences, Thailand
Loua, Kovana Marcel
Guinea
Institut National de Santé Publique
Maïga-Ascofaré, Oumou
Mali, Bamako
University of Sciences
Germany, Hamburg
Bernhard Nocht Institut Fur Tropenmedizin Hamburg
Ghana, Kumasi
Kwame Nkrumah University of Science & Technology
Malangone, Cinzia
United Kingdom, Hinxton
Wellcome Sanger Institute
Manske, Heinrich Magnus
United Kingdom, Hinxton
Wellcome Sanger Institute
Marfurt, Jutta
Australia, Darwin
Menzies School of Health Research
Marsh, Kevin
United Kingdom, Oxford
University of Oxford
Kenya, Nairobi
African Academy of Sciences
Mayxay, Mayfong
Thailand
Mahosot Hospital, Lao
Laos, Vientiane
University of Health Sciences
Miles, Alistair J.
United Kingdom, Hinxton
Wellcome Sanger Institute
Miotto, Olivo
United Kingdom, Hinxton
Wellcome Sanger Institute
Thailand, Bangkok
Mahidol Oxford Tropical Medicine Research Unit
Mobegi, Victor Atunga
Kenya, Nairobi
University of Nairobi
Mokuolu, Olugbenga Ayodeji
Nigeria, Ilorin
University of Ilorin
Montgomery, Jacqui L.
Australia, Clayton
Monash University
Mueller, Ivo
Australia, Melbourne
Walter and Eliza Hall Institute of Medical Research
Spain, Barcelona
Instituto de Salud Global de Barcelona
Newton, Paul N.
Thailand
Mahosot Hospital, Lao
Nguyen, Thuy
United Kingdom, Hinxton
Wellcome Sanger Institute
Nguyen, Thuy Nhien Thanh
Viet Nam, Ho Chi Minh City
Oxford University Clinical Research Unit
Noedl, Harald
Unknown Affiliation
Nosten, François Henry
United Kingdom, Oxford
University of Oxford
Thailand, Mae Sod
Shoklo Malaria Research Unit
Noviyanti, Rintis
Indonesia, Jakarta
Eijkman Institute for Molecular Biology
Nzila, Alexis M.
Saudi Arabia, Dhahran
King Fahd University of Petroleum and Minerals
Ochola-Oyier, Lynette Isabella Sabella
Kenya, Nairobi
Wellcome Trust Research Laboratories Nairobi
Ocholla, Harold
Kenya, Nairobi
University of Nairobi
Oduro, Abraham Rexford
Ghana, Accra
Ghana Health Service
Omedo, Irene A.
Kenya, Nairobi
Wellcome Trust Research Laboratories Nairobi
Onyamboko, Marie A.
Democratic Republic Congo, Kinshasa
Universite de Kinshasa
Ouedraogo, Jean Bosco
Burkina Faso, Ouagadougou
Institut de Recherche en Sciences de la Santé
Kolapo, Oyebola Muyiwa
Nigeria, Yaba
Nigerian Institute of Medical Research
Nigeria, Lagos
University of Lagos
Pearson, Richard D.
United Kingdom, Hinxton
Wellcome Sanger Institute
Peshu, Norbert M.
Kenya, Nairobi
Wellcome Trust Research Laboratories Nairobi
Pyae Phyo, Aung Pyae P.
Thailand, Bangkok
Mahidol Oxford Tropical Medicine Research Unit
Thailand, Mae Sod
Shoklo Malaria Research Unit
Plowe, Christopher Vv
United States, Baltimore
University of Maryland, Baltimore Umb
Price, Ric N.
Thailand, Bangkok
Mahidol Oxford Tropical Medicine Research Unit
Australia, Darwin
Menzies School of Health Research
United Kingdom, Oxford
University of Oxford
Pukrittayakamee, Sasithon
Thailand, Nakhon Pathom
Mahidol University
Randrianarivelojosia, Milijaona
Madagascar, Antananarivo
Institut Pasteur de Madagascar
Madagascar, Antananarivo
Universités D'antananarivo et de Mahajanga
Rayner, Julian C.
United Kingdom, Hinxton
Wellcome Sanger Institute
Ringwald, Pascal
Switzerland, Geneva
Organisation Mondiale de la Santé
Rockett, Kirk A.
United Kingdom, Hinxton
Wellcome Sanger Institute
United Kingdom, Oxford
University of Oxford
Rowlands, Kate
United Kingdom, Oxford
University of Oxford
Saunders, David L.
Thailand, Bangkok
Armed Forces Research Institute of Medical Sciences, Thailand
Shayo, Alex
Tanzania, Arusha
Nelson Mandela African Institution of Science and Technology
Siba, Peter Max
Papua new Guinea, Goroka
Papua new Guinea Institute of Medical Research
Simpson, Victoria J.
Unknown Affiliation
Stalker, Jim W.
United Kingdom, Hinxton
Wellcome Sanger Institute
Su, Xinzhuan
United States, Bethesda
National Institutes of Health Nih
Sutherland, Colin J.
United Kingdom, London
London School of Hygiene & Tropical Medicine
Takala-Harrison, Shannon L.
United States, Baltimore
University of Maryland, Baltimore Umb
Tavul, Livingstone
Papua new Guinea, Goroka
Papua new Guinea Institute of Medical Research
Thathy, Vandana
Kenya, Nairobi
Wellcome Trust Research Laboratories Nairobi
United States, New York
Columbia University Irving Medical Center
Tshefu, Antoinette Kitoto
Democratic Republic Congo, Kinshasa
Universite de Kinshasa
Verra, Federica
Italy, Rome
Sapienza Università Di Roma
Vinetz, Joseph M.
Peru, Lima
Universidad Peruana Cayetano Heredia
United States, New Haven
Yale School of Medicine
Wellems, Thomas E.
United States, Bethesda
National Institutes of Health Nih
Wendler, Jason P.
United Kingdom, Oxford
University of Oxford
White, Nicholas J.
Thailand, Bangkok
Mahidol Oxford Tropical Medicine Research Unit
Wright, Ian
Unknown Affiliation
Yavo, William
Cote D'ivoire, Abidjan
Université de Cocody-abidjan
Cote D'ivoire, Abidjan
Malaria Research and Control Center of the National Institute of Public Health
Ye, Htut
Unknown Affiliation
Statistics
Citations: 42
Authors: 136
Affiliations: 74
Identifiers
Doi:
10.12688/wellcomeopenres.16168.1
ISSN:
2398502X
Research Areas
Genetics And Genomics
Infectious Diseases