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A microRNA expression profiling study of matching fresh frozen and formalin-fixed paraffin-embedded samples

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The purpose of this study was to investigate the correlation between microRNA expression profiles from matching fresh frozen (FrFr) and formalin-fixed paraffin-embedded (FFPE) samples. We isolated RNA from eight different murine organs, each divided in half and prepared as either FrFr or FFPE samples. To evaluate the quality and reliability of the RNA isolations performed on the FFPE samples, we compared three different commercially available FFPE RNA preparation kits. The quality of the extracted RNA was analyzed on the Bioanalyzer from Agilent, and the microRNA expression profiling was carried out using the LNA-based miRCURY microarray platform.

Our studies show that despite a high degree of RNA degradation predominantly in the FFPE samples, we get an excellent correlation between the matching FrFr and FFPE samples. Thus, for two out of three extraction methods the correlation coefficient (R2) was above 0.95 in all eight murine organs.
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Document Type: Abstract

Publication date: May 1, 2008

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