Performance of HyPer5 dye in array CGH analysis. Genomic DNA isolated from three patients were labelled separately with Cy5-dCTP and HyPer5-CTP using BioPrime Array CGH Genomic DNA Labeling system (Invitrogen, Carlsbad, CA). The control reactions were labelled with Cy3-dCTP. The HyPer5/Cy3 arrays are shown on the left and Cy5/Cy3 arrays on the right. Results from patient 1 are on top, patient 2 in the middle and patient 3 data are shown at the bottom arrays. Samples labelled with HyPer5-dCTP perform similarly to Cy5-labeled samples in 3K BAC CGH array as demonstrated by detection of aberrations at 2p21-16.3 and 15q26.3-26.2. The y-axis represents ratios of HyPer5/Cy3 or Cy5-Cy3 signal intensities in the logarithmic scale.