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GeneChip® Mouse Expression Set 430
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Are there any transcripts represented exactly as they were on MGU74v2?
The hybridization controls (bioB, bioC, bioD, cre), polyA+ controls (dap, lys, phe, thr and trp) and housekeeping (beta-actin, gapdh, transferrin receptor and pyruvate carboxylase) genes are represented by 20 probe-pair probe sets as on the MG-U74v2 Set. In addition, the hybridization controls and the majority of the polyA+ controls are also represented by 11 probe-pair probe sets.

The remaining probe sets representing mouse transcripts were selected based on more recent sequence information with improvements to sequence and probe selection methods. The new probe sets have 11 probe pairs, while MG-U74v2 probe sets have 16 probe pairs. Thus, probe sets representing similar transcripts will not be identical. The comparison spreadsheets (and associated instructions) available at Affymetrix.com will be useful tools to understand the relationships between the probe sets and the probe selection regions of these two array designs.