Table 5. Summary of redundant probe sets consistency evaluation.

Evaluated Metric	Groups Compared	Statistics Used
P/A call	Redundant probe sets from genes with just two redundant probe sets	c, the number of genes with consistent P/A call; T, the total number of genes analyzed
	Random biological samples of the same probe set
Significance for brain region effect	Redundant probe sets for all genes with redundant probe sets	, the proportion of probe sets that are significant for gene i (i = 1,…,G); G, the total number of associated multi-probe set target genes being tested on the array.
	Present redundant probe sets for all genes with redundant probe sets
	Random biological samples of the same probe set
Fold change	Redundant probe sets from genes with two redundant probe sets	Pearson correlation coefficients and proportion of genes with opposite signed fold changes
	Present redundant probe sets from genes with two redundant probe sets
	Present redundant probe sets from genes with two redundant probe sets and at least one probe set significant
	Random biological samples of the same probe set