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Table 2 SNP-heritability of severe malaria susceptibility/resistance in Gambian population at different basic quality threshold using MLM

From: Genome-wide association studies of severe P. falciparum malaria susceptibility: progress, pitfalls and prospects

Population Sample relatedness-threshold SNP missingness-proportion SNP differential-missingness
Proportion
Prevalence Covariate
principal-components
No.
Samples
No.
SNPs
GCTA h2(%
SE)
PCGC h2(
SE)
Gambia 5% 1% 10 4920 1627656 37.8(.05).  
  5% 5% 1 × 10−10 1% 10 4128 1627656 30.5(.05)  
  5% 5% 1x10− 5 1% 10 4128 1607610 28.7(.05)  
  5% 5% 1 × 10−3 1% 10 4128 1570344 25.1(.05)  
  5% 2% 1 × 10− 3 1% 10 4128 1486554 20.1(.05) 19.8(.07)
  5% 2% 1 × 10−3 1% 15 4128 1486554 22.5(.05)  
  5% 2% 1x10−3 1% 20 4128 1486554 19.5(.05)  
  Phased 1% 10 4128 1627656 20.4(.06)  
Mandinka 5% 2% 1x10−3 1% 10 1281 1486554 24.2(0.6)  
  1. GCTA Genome Complex Trait Analysis, PCGC Phenotype Correlation Genotype Correlation regression