Microarray validation: factors influencing correlation between oligonucleotide microarrays and real-time PCR.

As with fold change, this analysis demonstrates the predominant effect of array data p-value on microarray and qPCR correlations, as genes yielding highly significant array results generated high correlations regardless of spot intensity or C t values (Fig. 3 b and 3 c).

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Given that fold change is a component of the p-values generated by Agilent and Rosetta data analysis software, the overall effect of fold change on data correlation is likely to be significant as shown in Figure 4 .

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