Figure 1.

Microarray layout and design. The microarray contains blocks of probesets for SNP genotyping and CGH. SNP genotyping probesets are composed of two probe quartets, one for each strand (red blowouts). Probes from one quartet typically have hybridization signals in a similar dynamic range. These signals are used to determine a base call and calculate base calling robustness, which is expressed as a D_score where the two lesser hybridization signals are used to estimate background noise for each probe quartet (grey inset). The CGH probesets record data that are used to generate log₂ ratios of a test and reference sample.