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Figure 17


The Atp1a2 gene generates multiple transcripts (yellow bars) that span a total of 61 known single-nucleotide polymorphisms (SNPs) (shown as red bars) between the C57BL/6J (B6) and DBA2/J (D2) strains. Blue bars represent four Affymetrix microarray probe sets (all of which span known SNPs) and two TaqMan real-time PCR probes (neither of which spans known SNPs). The SNPs confound interpretation of microarray expression results as the Affymetrix gene expression ratio (B6/D2) values differ dramatically depending on whether an SNP mask is applied (i.e., whether the SNP-affected probes are removed from the analyses or not). The masked Affymetrix microarray results are confirmed by TaqMan quantitative real-time PCR results.

Nicole A.R. Walter, et al. Nat Methods. ;4(9):679-680.

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