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Chunk #0 — Background — The ideas underlying the data simulation

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Construction of the model for the Genetic Analysis Workshop 14 simulated data: genotype-phenotype relationships, gene interaction, linkage, association, disequilibrium, and ascertainment effects for a complex phenotype.
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The simulated data for Genetic Analysis Workshop 14 (GAW14) arose out of our experience with analysis of data from several actual diseases and our experience with GAW11. Although the final data contained coarse and fine single-nucleotide polymorphism (SNP) data, microsatellite data, association and linkage disequilibrium elements, the main focus of the simulation was phenotype, a decision we made that was guided by the belief that if the phenotype is correct, reasonable genetic analysis methods will yield answers.