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

2022Artigo científico Acesso aberto
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dc.contributor.authorMalariaGEN
dc.contributor.authorUrbano Ferreira, Marcelo
dc.contributor.institutionIndividual Health Care (IHC)
dc.contributor.institutionInstituto de Higiene e Medicina Tropical (IHMT)
dc.contributor.institutionGlobal Health and Tropical Medicine (GHTM)
dc.contributor.pblF1000 Research Ltd.
dc.date.accessioned2022-09-19T22:23:45Z
dc.date.available2022-09-19T22:23:45Z
dc.date.issued2022
dc.descriptionPublisher Copyright: © 2022 MalariaGEN et al.
dc.description.abstractThis report describes the MalariaGEN Pv4 dataset, a new release of curated genome variation data on 1,895 samples of Plasmodium vivax 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 dhfr, dhps and mdr1 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 P. vivax and to accelerate genomic surveillance for malaria control and elimination.en
dc.description.versionpublishersversion
dc.description.versionpublished
dc.format.extent1159922
dc.identifier.doi10.12688/wellcomeopenres.17795.1
dc.identifier.otherPURE: 46500083
dc.identifier.otherPURE UUID: 037501cf-e72c-4fc6-83cd-ba1ac0772e89
dc.identifier.otherScopus: 85131082443
dc.identifier.otherORCID: /0000-0002-5293-9090/work/118886144
dc.identifier.urihttp://hdl.handle.net/10362/143839
dc.identifier.urlhttps://www.scopus.com/pages/publications/85131082443
dc.language.isoeng
dc.peerreviewedyes
dc.subjectData resource
dc.subjectGenomic epidemiology
dc.subjectGenomics
dc.subjectMalaria
dc.subjectPlasmodium vivax
dc.subjectMedicine (miscellaneous)
dc.subjectGeneral Biochemistry,Genetics and Molecular Biology
dc.subjectSDG 3 - Good Health and Well-being
dc.titleAn open dataset of Plasmodium vivax genome variation in 1,895 worldwide samplesen
dc.typejournal article
degois.publication.titleWellcome Open Research
degois.publication.volume7
dspace.entity.typePublication
rcaap.rightsopenAccess

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