Figure 5

Difference between summarized probe set intensities using the custom CDFs versus the default CDF. Probe set intensities were summarized by MAS 5.0, dChip and RMA for each of the three custom CDFs and for the default CDF. The graphed lines show the average percent change in custom CDF probe set expression values with respect to the default CDF expression values as we removed probe pairs. (a) Probe set intensities were summarized by MAS 5.0. (b) Probe set intensities were summarized by dChip. (c) Probe set intensities were summarized by RMA.