Array-based genotyping was performed on an Illumina BeadStation platform using Infinium 1M (singleton) v1 (1.05 million markers) arrays and Infinium 1M (duo) v3 (1.2 million markers) arrays (Illumina Inc. California, USA). The BeadStation software was set to output bead level intensity data (i.e., raw green/red beadscores). Each of the 8 pools was genotyped in triplicate twice; once on a BeadStation at QIMR (1M v1 arrays) and once on a Beadstation at deCODE Genetics (deCODE Genetics Inc., Reykjavik, Iceland) (1M v3 arrays). In each case, each pool was hybridized to three Illumina arrays. Thus, 6 replicates are available for each of the 8 pools.
