Computational protocol: Polymorphisms in the Haem Oxygenase-1 promoter are not associated with severity of Plasmodium falciparum malaria in Ghanaian children

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Protocol publication

[…] Deviations from the Hardy-Weinberg equilibrium at the two loci; T(−413)A and G(−1135)A were tested using The Court Lab Calculator []. Cut-off was set to p < 0.05. Allele and genotype frequencies were compared between the disease groups with Chi-square or Fisher’s exact test (SigmaPlot 12.3 SPSS Inc., USA) for the SNPs and the repeat length polymorphism. Associations between alleles, genotypes, or haplotypes, and disease groups were investigated with logistic regression models to determine odds ratio and p values, with disease group as outcome variable (defined as controls, uncomplicated malaria patients, and severe malaria patients (collectively and divided into severe anaemia and cerebral malaria). Age and gender were included as covariates; p-values < 0.05 were considered significant. Calculations were performed using SAS ver. 9.2, (2002–2008, SAS Institute Inc., Cary, NC, USA). Linkage disequilibrium was calculated using Arlequin []. […]

Pipeline specifications

Software tools SigmaPlot, Arlequin
Applications Miscellaneous, Population genetic analysis
Organisms Plasmodium falciparum, Homo sapiens
Diseases Anemia, Malaria, Thrombasthenia, Malaria, Cerebral