Genome-wide gene expression profiling of @entity406 -fixed paraffin-embedded XXXX core biopsies using microarrays.

@entity0 @entity5 @entity406 @entity3 @entity1722
The routine workflow for @entity3 diagnostics includes biopsy processing by @entity406 fixation and paraffin embedding. It has been shown only recently that this kind of sample can be used for gene expression analysis with microarrays. To support this view, the authors conducted a microarray study using @entity406 -fixed paraffin-embedded (FFPE) core needle biopsies from @entity0 . Typically, for the 3'-biased chip type that was used, the probe sets interrogate sequences near the poly-A-tail of the transcripts, and this kind of probe turned out to be suitable to measure RNA levels in FFPE biopsies. For ER and @entity1722 , the authors observed strong correlations between RNA levels and protein expression (p = 0.000003 and p = 0.0022). ER and @entity1722 classification of the biopsies by the RNA levels was feasible with high sensitivity and specificity (AUROC = 0.93 and AUROC = 0.96). Furthermore, a signature of 346 genes was identified that correlated with ER and a signature of 528 genes that correlated with @entity1722 protein status. Many of these genes (ER: 63%) could be confirmed by analysis of gene expression data from frozen tissues. The findings support the notion that clinically relevant information can be gained from microarray analyses of FFPE @entity5 biopsies. This opens new opportunities for biomarker detection studies and the integration of microarrays into the workflow of @entity5 diagnostics.
