Signal correlation scatter plots for inter-assay and intra-assay comparisons of the IVT and Enzo transcript labeling kits. Samples of total RNA from Gleason pattern 3 (GP3) and pattern 5 (GP5) laser capture microdissected cells were linearly amplified, labeled using the IVT kit or the Enzo kit, and hybridized to HG-U133 Plus 2.0 arrays. Signal correlation of inter-assay analysis comparing GP3 samples (A), GP5 samples (B), and hybridization replicates (see Results) of GP5 samples (C) labeled using the IVT or Enzo kit. (D), signal correlation of intra-assay analysis comparing replicate GP5 samples amplified on different days starting with 2 ng or 5 ng of total RNA, labeled using the IVT kit, and scanned using two different GeneChip® Scanner 3000 instruments. Note that the intensity level ranges for transcripts labeled with the IVT and Enzo kits are different.