Repository logo
 

An open dataset of Plasmodium vivax genome variation in 1,895 worldwide samples.

Simple item page
dc.contributor.authorAdam, Ishag
dc.contributor.authorAlam, Mohammad Shafiul
dc.contributor.authorAlemu, Sisay
dc.contributor.authorAmaratunga, Chanaki
dc.contributor.authorAmato, Roberto
dc.contributor.authorAndrianaranjaka, Voahangy
dc.contributor.authorAnstey, Nicholas M
dc.contributor.authorAseffa, Abraham
dc.contributor.authorAshley, Elizabeth
dc.contributor.authorAssefa, Ashenafi
dc.contributor.authorAuburn, Sarah
dc.contributor.authorBarber, Bridget E
dc.contributor.authorBarry, Alyssa
dc.contributor.authorBatista Pereira, Dhelio
dc.contributor.authorCao, Jun
dc.contributor.authorChau, Nguyen Hoang
dc.contributor.authorChotivanich, Kesinee
dc.contributor.authorChu, Cindy
dc.contributor.authorDondorp, Arjen M
dc.contributor.authorDrury, Eleanor
dc.contributor.authorEcheverry, Diego F
dc.contributor.authorErko, Berhanu
dc.contributor.authorEspino, Fe
dc.contributor.authorFairhurst, Rick
dc.contributor.authorFaiz, Abdul
dc.contributor.authorFernanda Villegas, María
dc.contributor.authorGao, Qi
dc.contributor.authorGolassa, Lemu
dc.contributor.authorGoncalves, Sonia
dc.contributor.authorGrigg, Matthew J
dc.contributor.authorHamedi, Yaghoob
dc.contributor.authorHien, Tran Tinh
dc.contributor.authorHtut, Ye
dc.contributor.authorJohnson, Kimberly J
dc.contributor.authorKarunaweera, Nadira
dc.contributor.authorKhan, Wasif
dc.contributor.authorKrudsood, Srivicha
dc.contributor.authorKwiatkowski, Dominic P
dc.contributor.authorLacerda, Marcus
dc.contributor.authorLey, Benedikt
dc.contributor.authorLim, Pharath
dc.contributor.authorLiu, Yaobao
dc.contributor.authorLlanos-Cuentas, Alejandro
dc.contributor.authorLon, Chanthap
dc.contributor.authorLopera-Mesa, Tatiana
dc.contributor.authorMarfurt, Jutta
dc.contributor.authorMichon, Pascal
dc.contributor.authorMiotto, Olivo
dc.contributor.authorMohammed, Rezika
dc.contributor.authorMueller, Ivo
dc.contributor.authorNamaik-Larp, Chayadol
dc.contributor.authorNewton, Paul N
dc.contributor.authorNguyen, Thuy-Nhien
dc.contributor.authorNosten, Francois
dc.contributor.authorNoviyanti, Rintis
dc.contributor.authorPava, Zuleima
dc.contributor.authorPearson, Richard D
dc.contributor.authorPetros, Beyene
dc.contributor.authorPhyo, Aung P
dc.contributor.authorPrice, Ric N
dc.contributor.authorPukrittayakamee, Sasithon
dc.contributor.authorRahim, Awab Ghulam
dc.contributor.authorRandrianarivelojosia, Milijaona
dc.contributor.authorRayner, Julian C
dc.contributor.authorRumaseb, Angela
dc.contributor.authorSiegel, Sasha V
dc.contributor.authorSimpson, Victoria J
dc.contributor.authorThriemer, Kamala
dc.contributor.authorTobon-Castano, Alberto
dc.contributor.authorTrimarsanto, Hidayat
dc.contributor.authorUrbano Ferreira, Marcelo
dc.contributor.authorVélez, Ivan D
dc.contributor.authorWangchuk, Sonam
dc.contributor.authorWellems, Thomas E
dc.contributor.authorWhite, Nicholas J
dc.contributor.authorWilliam, Timothy
dc.contributor.authorYasnot, Maria F
dc.contributor.authorYilma, Daniel
dc.contributor.orcidAlam, Mohammad Shafiul [0000-0001-8330-5499]
dc.contributor.orcidAshley, Elizabeth [0000-0002-7620-4822]
dc.contributor.orcidBarber, Bridget E [0000-0003-1066-7960]
dc.contributor.orcidBatista Pereira, Dhelio [0000-0002-7761-5498]
dc.contributor.orcidChu, Cindy [0000-0001-9465-8214]
dc.contributor.orcidDondorp, Arjen M [0000-0001-5190-2395]
dc.contributor.orcidEcheverry, Diego F [0000-0003-0301-4478]
dc.contributor.orcidEspino, Fe [0000-0003-1690-1711]
dc.contributor.orcidFaiz, Abdul [0000-0002-3460-7535]
dc.contributor.orcidGolassa, Lemu [0000-0002-1216-8711]
dc.contributor.orcidGrigg, Matthew J [0000-0001-9914-8352]
dc.contributor.orcidKarunaweera, Nadira [0000-0003-3985-1817]
dc.contributor.orcidKwiatkowski, Dominic P [0000-0002-5023-0176]
dc.contributor.orcidLey, Benedikt [0000-0002-5734-0845]
dc.contributor.orcidMiotto, Olivo [0000-0001-8060-6771]
dc.contributor.orcidNguyen, Thuy-Nhien [0000-0002-4101-5706]
dc.contributor.orcidNosten, Francois [0000-0002-7951-0745]
dc.contributor.orcidPearson, Richard D [0000-0002-7386-3566]
dc.contributor.orcidPhyo, Aung P [0000-0002-0383-9624]
dc.contributor.orcidPrice, Ric N [0000-0003-2000-2874]
dc.contributor.orcidRayner, Julian C [0000-0002-9835-1014]
dc.contributor.orcidUrbano Ferreira, Marcelo [0000-0002-5293-9090]
dc.contributor.orcidWellems, Thomas E [0000-0003-3899-8454]
dc.contributor.orcidYasnot, Maria F [0000-0001-8081-4212]
dc.contributor.orcidYilma, Daniel [0000-0001-6058-2696]
dc.date.accessioned2022-07-03T01:02:33Z
dc.date.available2022-07-03T01:02:33Z
dc.date.issued2022-04-14
dc.date.updated2022-07-03T01:02:32Z
dc.description.abstractThis report describes the MalariaGEN Pv4 dataset, a new release of curated genome variation data on 1,895 samples of <i>Plasmodium vivax</i> collected at 88 worldwide locations between 2001 and 2017. It includes 1,370 new samples contributed by MalariaGEN and VivaxGEN partner studies in addition to previously published samples from these and other sources. We provide genotype calls at over 4.5 million variable positions including over 3 million single nucleotide polymorphisms (SNPs), as well as short indels and tandem duplications. This enlarged dataset highlights major compartments of parasite population structure, with clear differentiation between Africa, Latin America, Oceania, Western Asia and different parts of Southeast Asia. Each sample has been classified for drug resistance to sulfadoxine, pyrimethamine and mefloquine based on known markers at the <i>dhfr</i>, <i>dhps</i> and <i>mdr1</i> loci. The prevalence of all of these resistance markers was much higher in Southeast Asia and Oceania than elsewhere. This open resource of analysis-ready genome variation data from the MalariaGEN and VivaxGEN networks is driven by our collective goal to advance research into the complex biology of <i>P. vivax</i> and to accelerate genomic surveillance for malaria control and elimination.
dc.identifier.doi10.17863/CAM.86128
dc.identifier.issn2398-502X
dc.identifier.otherPMC9127374
dc.identifier.other35651694
dc.identifier.urihttps://www.repository.cam.ac.uk/handle/1810/338715
dc.languageeng
dc.rightsAttribution 4.0 International
dc.rights.urihttps://creativecommons.org/licenses/by/4.0/
dc.sourceessn: 2398-502X
dc.sourcenlmid: 101696457
dc.subjectMalaria
dc.subjectGenomics
dc.subjectPlasmodium vivax
dc.subjectGenomic Epidemiology
dc.subjectData Resource
dc.titleAn open dataset of <i>Plasmodium vivax</i> genome variation in 1,895 worldwide samples.
dc.typeArticle
prism.publicationNameWellcome open research
prism.volume7
pubs.funder-project-idWellcome Trust (108413/A/15/D, 204911, 206194)
rioxxterms.licenseref.urihttps://creativecommons.org/licenses/by/4.0/
rioxxterms.versionVoR
rioxxterms.versionofrecord10.12688/wellcomeopenres.17795.1

Files

Original bundle
Now showing 1 - 1 of 1
Thumbnail Image
Name:
article.pdf
Size:
1.11 MB
Format:
Adobe Portable Document Format
Description:
Published version
Licence
https://creativecommons.org/licenses/by/4.0/
Download

Collections

Jisc Publications Router