Detection of Prostate Cancer Biomarkers by Expression Microarray Analysis of Transplex WTA2-Amplified FFPE Tissue RNA
نویسندگان
چکیده
The Transplex Complete Whole Transcriptome Amplification (WTA2) Kit has been enhanced to effectively amplify damaged RNA. Total RNA samples isolated from matched FFPE (formalin-fixed paraffin-embedded) and frozen prostate tissues (malignant and normal) were amplified with the Transplex WTA2 Kit and analyzed on Agilent Whole Genome expression microarrays. A call rate of >65% was observed for combined FFPE and frozen expression differentials (Malignant/Normal), with >90% commonality between the FFPE and frozen data sets. Amplification reproducibility of experimental replicates was demonstrated by principal component analysis. Pair-wise comparison of FFPE malignant and normal expression (p < 0.0001) resulted in detection of 66 known prostate cancer biomarkers. Similar microarray pair-wise analysis of the original matched FFPE RNAs amplified with the Nugen WT-OvationTM FFPE Kit at a significantly lower level of confidence (p < 0.05) revealed only a single array feature, disallowing a comprehensive comparison with Transplex WTA2. These results confirm the utility of the Transplex WTA2 Kit for amplification of damaged DNA.
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