An open dataset of Plasmodium falciparum genome variation in 7,000 worldwide samples
Pearson, R. D.; Amato, R.; Kwiatkowski, D. P.; MalariaGEN Plasmodium falciparum Community Project,
Show 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.
Matching journals
The top 3 journals account for 50% of the predicted probability mass.
Similar papers in this journal
- Genome, proteome, and immunome data explain why 6 month controlled human malaria infection with sporozoites of the Pf7G8 clone of Plasmodium falciparum is a rigorous predictor of the efficacy of the PfNF54-based PfSPZ Vaccine in Africa 96%
- The impact of malaria-protective red blood cell polymorphisms on parasite biomass in children with severe Plasmodium falciparum malaria 96%
- High-resolution micro-epidemiology of parasite spatial and temporal dynamics in a high malaria transmission setting in Kenya 95%
Similar papers in this journal
- Sensitive and modular amplicon sequencing of Plasmodium falciparum diversity and resistance for research and public health 97%
- Identification of novel genetic variants in the malaria vaccine candidate PfRh5: structure-guided insights into potential function 96%
- Plasmodium falciparum genomic surveillance reveals spatial and temporal trends, association of genetic and physical distance, and household clustering 96%
Similar papers in this journal
- A molecular barcode and online tool to identify and map imported infection with Plasmodium vivax 94%
- Pfcerli2, a duplicated gene in the malaria parasite Plasmodium falciparum essential for invasion of erythrocytes as revealed by phylogenetic and cell biological analysis. 93%
- Cuticular hydrocarbons are associated with mating success and insecticide resistance in malaria vectors 92%
Similar papers in this journal
- Genetic surveillance in the Greater Mekong Subregion and South Asia to support malaria control and elimination 98%
- Plasmodium falciparum adapts its investment into replication versus transmission according to the host environment 95%
- Household clustering and seasonal genetic variation of Plasmodium falciparum at the community-level in The Gambia 94%
Similar papers in this journal
- Emergence of artemisinin-resistant Plasmodium falciparum with kelch13 C580Y mutations on the island of New Guinea 98%
- Resolving drug selection and migration in an inbred South American Plasmodium falciparum population with identity-by-descent analysis 96%
- The exception that proves the rule: Virulence gene expression at the onset of Plasmodium falciparum blood stage infections 96%
"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.