senegambia_genotype_data

Plasmodium falciparum isolates from Senegal and The Gambia, some DNA directly drawn and some from culture-adapted parasites; only single infections included. SNP calling was as described in (Van Tyne, et al. 2011): Parasite DNA was hybridized to a P. falciparum Affymetrix array containing 74,656 SNP markers and genotypes called using the BRLMM-P algorithm. SNPs were validated by comparing array genotypes with Sanger sequencing genotypes for 17 reference strains (Van Tyne, et al. 2011); perfect concordance was required, as was a minimum 80% call rate. Genomic positions and translations are based on the PlasmoDB v5.0 assembly and annotation.