Multiple genotyping assessments of each DNA pool can aid the precision of estimates of pool-to-pool variability as well. We have used three to four microarrays to assess DNAs from each pool. These numbers are based on preliminary studies that seek to optimize estimates of “true” relative allele frequencies at acceptable cost. We construct each pool using DNAs from 20 individuals of the same self-reported ethnicity and same disease or “control” phenotype. Thus, we obtain results in quadruplicate at 1/5 – 1/7 the reagent costs of individual genotyping using a single array set per person.
