Journal article
An open dataset of Plasmodium falciparum genome variation in 7,000 worldwide samples
- Abstract:
- 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.
- Publication status:
- Published
- Peer review status:
- Peer reviewed
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- Files:
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(Preview, Version of record, pdf, 3.8MB, Terms of use)
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- Publisher copy:
- 10.12688/wellcomeopenres.16168.2
Authors
- Publisher:
- F1000Research
- Journal:
- Wellcome Open Research More from this journal
- Volume:
- 6
- Article number:
- 42
- Publication date:
- 2021-07-13
- Acceptance date:
- 2021-03-25
- DOI:
- EISSN:
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2398-502X
- Language:
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English
- Keywords:
- Pubs id:
-
1171851
- Local pid:
-
pubs:1171851
- Deposit date:
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2021-04-25
- ARK identifier:
Terms of use
- Copyright holder:
- MalariaGEN et al.
- Copyright date:
- 2021
- Rights statement:
- © 2021 MalariaGEN et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. The author(s) is/are employees of the US Government and therefore domestic copyright protection in USA does not apply to this work. The work may be protected under the copyright laws of other jurisdictions when used in those jurisdictions.
- Licence:
- CC Attribution (CC BY)
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