File S1 - Using Genetic Prediction from Known Complex Disease Loci to Guide the Design of Next-Generation Sequencing Experiments

Appendices A, B and C and Figures S1 and S2. Appendix A describes methods for predicting allele frequencies after prioritisation and appendices B and C describe the modified Inside-Outside algorithm and its application to family data. Figure S1 shows the distribution of Δy under different disease prevalence and risk score predictive powers, and Figure S2 shows the effect of disease prevalence and allele frequency on the effectiveness of prioritisation.
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