ArticleMalaria journal2010
Candidate malaria susceptibility/protective SNPs in hospital and population-based studies: the effect of sub-structuring.
Article in Malaria journal, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed, 32 citations in OpenAlex.
- Host candidate gene polymorphisms and associated clearance of P. falciparum amodiaquine and fansidar resistance mutants in children less than 5 years in Cameroon.Pathogens and global health · 2014Trial
- Risk score prediction model based on single nucleotide polymorphism for predicting malaria: a machine learning approach.BMC bioinformatics · 2022Article
- Leveraging Mann-Whitney U test on large-scale genetic variation data for analysing malaria genetic markers.Malaria journal · 2022Article
- Genetic diversity of the Sudanese: insights on origin and implications for health.Human molecular genetics · 2021Review
- iNOS polymorphism modulates iNOS/NO expression via impaired antioxidant and ROS content in P. vivax and P. falciparum infection.Redox biology · 2018Article
- Two complement receptor one alleles have opposing associations with cerebral malaria and interact with αeLife · 2018Article
- Geographical distribution of complement receptor type 1 variants and their associated disease risk.PloS one · 2017Article
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- Information Dynamics of Whole Genome Adaptation.Natural science · 2014Article
- MBL2 variations and malaria susceptibility in Indian populations.Infection and immunity · 2014Article
- Variations in ncRNA gene LOC284889 and MIF-794CATT repeats are associated with malaria susceptibility in Indian populations.Malaria journal · 2013Article
- Human candidate polymorphisms in sympatric ethnic groups differing in malaria susceptibility in Mali.PloS one · 2013Article
- Variation in human genes encoding adhesion and proinflammatory molecules are associated with severe malaria in the Vietnamese.Genes and immunity · 2012Article
- Genetic polymorphisms associated with anti-malarial antibody levels in a low and unstable malaria transmission area in southern Sri Lanka.Malaria journal · 2012Article
- IL-4 haplotype -590T, -34T and intron-3 VNTR R2 is associated with reduced malaria risk among ancestral indian tribal populations.PloS one · 2012Article
- Population genetics of malaria resistance in humans.Heredity · 2011Review
- Host candidate gene polymorphisms and clearance of drug-resistant Plasmodium falciparum parasites.Malaria journal · 2011Article
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Authors and funding
7 authors at 2 institutions in 2 countries.
Funding
Abstract
backgroundPopulations of East Africa including Sudan, exhibit some of the highest indices of genetic diversity in the continent and worldwide. The current study aims to address the possible impact of population structure and population stratification on the outcome of case-control association-analysis of malaria candidate-genes in different Sudanese populations, where the pronounced genetic heterogeneity becomes a source of concern for the potential effect on the studies outcome.
methodsA total of 72 SNPs were genotyped using the Sequenom iPLEX Gold assay in 449 DNA samples that included; cases and controls from two village populations, malaria patients and out-patients from the area of Sinnar and additional controls consisting of healthy Nilo-Saharan speaking individuals. The population substructure was estimated using the Structure 2.2 programme. RESULTS & DISCUSSION: The Hardy-Weinberg Equilibrium values were generally within expectation in Hausa and Massalit. However, in the Sinnar area there was a notable excess of homozygosity, which was attributed to the Whalund effect arising from population amalgamation within the sample. The programme STRUCTURE revealed a division of both Hausa and Massalit into two substructures with the partition in Hausa more pronounced than in Massalit; In Sinnar there was no defined substructure. More than 25 of the 72 SNPs assayed were informative in all areas. Some important SNPs were not differentially distributed between malaria cases and controls, including SNPs in CD36 and NOS2. A number of SNPs showed significant p-values for differences in distribution of genotypes between cases and controls including: rs1805015 (in IL4R1) (P = 0.001), rs17047661 (in CR1) (P = 0.02) and rs1800750 (TNF-376)(P = 0.01) in the hospital samples; rs1050828 (G6PD+202) (P = 0.02) and rs1800896 (IL10-1082) (P = 0.04) in Massalit and rs2243250 (IL4-589) (P = 0.04) in Hausa.
conclusionsThe difference in population structure partly accounts for some of these significant associations, and the strength of association proved to be sensitive to all levels of sub-structuring whether in the hospital or population-based study.
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