An open dataset of <i>Plasmodium falciparum</i> genome variation in 7,000 worldwide samples.

doi:10.12688/wellcomeopenres.16168.2

DRO

An open dataset of <i>Plasmodium falciparum</i> genome variation in 7,000 worldwide samples.

MalariaGEN,, Ahouidi, A, Ali, M, Almagro-Garcia, J, Amambua-Ngwa, A, Amaratunga, C, Amato, R, Amenga-Etego, L, Andagalu, B, Anderson, TJC, Andrianaranjaka, V, Apinjoh, T, Ariani, C, Ashley, EA, Auburn, S, Awandare, GA, Ba, H, Baraka, V, Barry, Alyssa, Bejon, P, Bertin, GI, Boni, MF, Borrmann, S, Bousema, T, Branch, O, Bull, PC, Busby, GBJ, Chookajorn, T, Chotivanich, K, Claessens, A, Conway, D, Craig, A, D'Alessandro, U, Dama, S, Day, NP, Denis, B, Diakite, M, Djimdé, A, Dolecek, C, Dondorp, AM, Drakeley, C, Drury, E, Duffy, P, Echeverry, DF, Egwang, TG, Erko, B, Fairhurst, RM, Faiz, A, Fanello, CA, Fukuda, MM, Gamboa, D, Ghansah, A, Golassa, L, Goncalves, S, Hamilton, WL, Harrison, GLA, Hart, L, Henrichs, C, Hien, TT, Hill, CA, Hodgson, A, Hubbart, C, Imwong, M, Ishengoma, DS, Jackson, SA, Jacob, CG, Jeffery, B, Jeffreys, AE, Johnson, KJ, Jyothi, D, Kamaliddin, C, Kamau, E, Kekre, M, Kluczynski, K, Kochakarn, T, Konaté, A, Kwiatkowski, DP, Kyaw, MP, Lim, P, Lon, C, Loua, KM, Maïga-Ascofaré, O, Malangone, C, Manske, M, Marfurt, J, Marsh, K, Mayxay, M, Miles, A, Miotto, O, Mobegi, V, Mokuolu, OA, Montgomery, J, Mueller, I, Newton, PN, Nguyen, T, Nguyen, T-N, Noedl, H, Nosten, F, Noviyanti, R, Nzila, A, Ochola-Oyier, LI, Ocholla, H, Oduro, A, Omedo, I, Onyamboko, MA, Ouedraogo, J-B, Oyebola, K, Pearson, RD, Peshu, N, Phyo, AP, Plowe, CV, Price, RN, Pukrittayakamee, S, Randrianarivelojosia, M, Rayner, JC, Ringwald, P, Rockett, KA, Rowlands, K, Ruiz, L, Saunders, D, Shayo, A, Siba, P, Simpson, VJ, Stalker, J, Su, X-Z, Sutherland, C, Takala-Harrison, S, Tavul, L, Thathy, V, Tshefu, A, Verra, F, Vinetz, J, Wellems, TE, Wendler, J, White, NJ, Wright, I, Yavo, W and Ye, H 2021, An open dataset of Plasmodium falciparum genome variation in 7,000 worldwide samples., Wellcome open research, vol. 6, pp. 42, doi: 10.12688/wellcomeopenres.16168.2.

Attached Files
Name			Description	MIMEType		Size	Downloads

Title	An open dataset of Plasmodium falciparum genome variation in 7,000 worldwide samples.
Author(s)	MalariaGEN, Ahouidi, A Ali, M Almagro-Garcia, J Amambua-Ngwa, A Amaratunga, C Amato, R Amenga-Etego, L Andagalu, B Anderson, TJC Andrianaranjaka, V Apinjoh, T Ariani, C Ashley, EA Auburn, S Awandare, GA Ba, H Baraka, V Barry, Alyssa orcid.org/0000-0002-1189-2310 Bejon, P Bertin, GI Boni, MF Borrmann, S Bousema, T Branch, O Bull, PC Busby, GBJ Chookajorn, T Chotivanich, K Claessens, A Conway, D Craig, A D'Alessandro, U Dama, S Day, NP Denis, B Diakite, M Djimdé, A Dolecek, C Dondorp, AM Drakeley, C Drury, E Duffy, P Echeverry, DF Egwang, TG Erko, B Fairhurst, RM Faiz, A Fanello, CA Fukuda, MM Gamboa, D Ghansah, A Golassa, L Goncalves, S Hamilton, WL Harrison, GLA Hart, L Henrichs, C Hien, TT Hill, CA Hodgson, A Hubbart, C Imwong, M Ishengoma, DS Jackson, SA Jacob, CG Jeffery, B Jeffreys, AE Johnson, KJ Jyothi, D Kamaliddin, C Kamau, E Kekre, M Kluczynski, K Kochakarn, T Konaté, A Kwiatkowski, DP Kyaw, MP Lim, P Lon, C Loua, KM Maïga-Ascofaré, O Malangone, C Manske, M Marfurt, J Marsh, K Mayxay, M Miles, A Miotto, O Mobegi, V Mokuolu, OA Montgomery, J Mueller, I Newton, PN Nguyen, T Nguyen, T-N Noedl, H Nosten, F Noviyanti, R Nzila, A Ochola-Oyier, LI Ocholla, H Oduro, A Omedo, I Onyamboko, MA Ouedraogo, J-B Oyebola, K Pearson, RD Peshu, N Phyo, AP Plowe, CV Price, RN Pukrittayakamee, S Randrianarivelojosia, M Rayner, JC Ringwald, P Rockett, KA Rowlands, K Ruiz, L Saunders, D Shayo, A Siba, P Simpson, VJ Stalker, J Su, X-Z Sutherland, C Takala-Harrison, S Tavul, L Thathy, V Tshefu, A Verra, F Vinetz, J Wellems, TE Wendler, J White, NJ Wright, I Yavo, W Ye, H
Journal name	Wellcome open research
Volume number	6
Start page	42
Publisher	p
Publication date	2021-01
ISSN	2398-502X 2398-502X
Keyword(s)	MalariaGEN
Summary	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.
Language	eng
DOI	10.12688/wellcomeopenres.16168.2
Indigenous content	off
Free to Read?	Yes
Persistent URL	http://hdl.handle.net/10536/DRO/DU:30166503

Document type:	Journal Article
Collections:	Faculty of Health School of Medicine Open Access Collection

Every reasonable effort has been made to ensure that permission has been obtained for items included in DRO. If you believe that your rights have been infringed by this repository, please contact drosupport@deakin.edu.au.

Citation counts:	Cited 0 times in TR Web of Science Cited 0 times in Scopus Search Google Scholar
Access Statistics:	8 Abstract Views, 0 File Downloads - Detailed Statistics
Created:	Wed, 06 Apr 2022, 08:32:02 EST