ArticlePLoS neglected tropical diseases2017
VivaxGEN: An open access platform for comparative analysis of short tandem repeat genotyping data in Plasmodium vivax populations.
Article in PLoS neglected tropical diseases, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed.
- Genetic Evidence of Cross-Border Plasmodium vivax Spread in a Malaria Pre-elimination Region of South Asia.The Journal of infectious diseases · 2026Article
- Characterizing the genetic diversity and population structure of Plasmodium knowlesi in Aceh Province, Indonesia.PloS one · 2025Article
- Plasmodium vivax populations in the western Greater Mekong Subregion evaluated using a genetic barcode.PLoS neglected tropical diseases · 2024Article
- No Association between the Plasmodium vivaxAntimicrobial agents and chemotherapy · 2023Article
- The changing epidemiology of Plasmodium vivax: Insights from conventional and novel surveillance tools.PLoS medicine · 2021Review
- Implementing parasite genotyping into national surveillance frameworks: feedback from control programmes and researchers in the Asia-Pacific region.Malaria journal · 2020Article
- Molecular surveillance over 14 years confirms reduction of Plasmodium vivax and falciparum transmission after implementation of Artemisinin-based combination therapy in Papua, Indonesia.PLoS neglected tropical diseases · 2020Article
- A molecular barcode to inform the geographical origin and transmission dynamics of Plasmodium vivax malaria.PLoS genetics · 2020Article
- Polymorphic markers for identification of parasite population in Plasmodium malariae.Malaria journal · 2020Article
- Genome-wide microsatellite characteristics of five human Plasmodium species, focusing on Plasmodium malariae and P. ovale curtisi.Parasite (Paris, France) · 2020Article
- Genomic analysis of a pre-elimination Malaysian Plasmodium vivax population reveals selective pressures and changing transmission dynamics.Nature communications · 2018Article
- Passively versus Actively Detected Malaria: Similar Genetic Diversity but Different Complexity of Infection.The American journal of tropical medicine and hygiene · 2017Article
- Chloroquine efficacy for Plasmodium vivax in Myanmar in populations with high genetic diversity and moderate parasite gene flow.Malaria journal · 2017Article
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Authors and funding
17 authors.
Funding
Abstract
backgroundThe control and elimination of Plasmodium vivax will require a better understanding of its transmission dynamics, through the application of genotyping and population genetics analyses. This paper describes VivaxGEN (http://vivaxgen.menzies.edu.au), a web-based platform that has been developed to support P. vivax short tandem repeat data sharing and comparative analyses.
resultsThe VivaxGEN platform provides a repository for raw data generated by capillary electrophoresis (FSA files), with fragment analysis and standardized allele calling tools. The query system of the platform enables users to filter, select and differentiate samples and alleles based on their specified criteria. Key population genetic analyses are supported including measures of population differentiation (FST), expected heterozygosity (HE), linkage disequilibrium (IAS), neighbor-joining analysis and Principal Coordinate Analysis. Datasets can also be formatted and exported for application in commonly used population genetic software including GENEPOP, Arlequin and STRUCTURE. To date, data from 10 countries, including 5 publicly available data sets have been shared with VivaxGEN.
conclusionsVivaxGEN is well placed to facilitate regional overviews of P. vivax transmission dynamics in different endemic settings and capable to be adapted for similar genetic studies of P. falciparum and other organisms.
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