The current study was undertaken to provide a resource for determining and quantifying differences in continental populations using the smallest numbers of SNPs possible as a cost and time efficient strategy. Previous studies by both our group and others, have shown that AIM sets of 200 markers or less have ability to discern continental structure (Parra, et al., 2004; Salari, et al., 2005; Yang, et al., 2005). However, the use of such markers has been sporadic, the validation of many of the markers incomplete, and in some cases have been limited to specific platforms that cannot be readily and inexpensively used by multiple laboratories. The current study utilizing the widely used TaqMan® platform provides a set of AIMs that distinguish continental groups that can be widely applied to genetic studies. In addition, the application of AIMs depends in part on availability of genotypes. Our study also provides genotypes of continental populations as a research community resource. Most importantly, the current study shows both the value and limitations of using smaller subsets of AIMs by providing guidance in practical application.
