Formalin fixation has been the standard method for conservation of clinical specimens for decades. However, a major drawback is the high degradation of nucleic acids, which complicates its use in genome-wide analyses. Unbiased identification of biomarkers, however, requires genome-wide studies, precluding the use of the valuable archives of specimens with long-term follow-up data. Therefore, re...

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 com...

UNLABELLED Formalin fixation and paraffin embedding present the standard procedures for conserving clinical tissues for histological analysis. However, molecular analysis is impaired by the cross linking properties of formalin. The PAXgene tissue system (PreAnalytix, Switzerland) is a new formalin-free tissue collection device. AIMS In this study we aimed to evaluate this new tissue preservat...

  Background and Objective: Formalin-fixed paraffin-embedded tissues are a valuable source of DNA for molecular studies. We designed and optimized an efficient procedure for DNA extraction from formalin-fixed paraffin embedded tissues. Materials and Methods: Seventy three blocks of cervical paraffin-embedded tissues were investigated. DNA was extracted using 45 minutes boiling in alkaline sol...

Deregulated signal pathways are promising targets for cancer therapy as they can drive tumour growth, survival, invasion, and metastasis. In most hospitals around the world, histopathological cancer diagnosis is based upon formalin-fixed and paraffin-embedded (FFPE) tissues. In this study, we evaluated whether phosphorylated signaling proteins can be extracted from cells and tissues after forma...

micrornas (mirnas) are a group of short non-coding rnas implicated in numerous fundamental cellular processes, and their disregulations have been linked to several pathologic conditions, mainly cancers. determining tissue distribution of mirnas is a prerequisite for understanding their exact functions during development, tissue homeostasis and abnormality. in situ hybridization is a powerful te...

The source tissue for biomarkers mRNA expression profiling of tumors has traditionally been fresh-frozen tissue. The adaptation of formalin-fixed, paraffin-embedded (FFPE) tissues for routine mRNA profiling would however be invaluable in view of their abundance and the clinical information related to them. However, their use in the clinic remains a challenge due to the poor quality of RNA extra...

microRNAs (miRNAs) are noncoding small RNAs that regulate gene expression at the translational level by mainly interacting with 3' UTRs of their target mRNAs. Archived formalin-fixed paraffin-embedded (FFPE) specimens represent excellent resources for biomarker discovery. Currently there is a lack of systematic analysis on the stability of miRNAs and optimized conditions for expression analysis...

BACKGROUND MicroRNAs have recently taken centre stage as short non-coding RNAs that regulate mRNA expression. AIM/METHODS To assess the feasibility of using microRNA techniques on routinely processed tissues, the accessibility of two representative microRNAs was examined by real-time quantitative PCR in 86 human formalin-fixed paraffin-embedded (FFPE) samples from liver, breast, bone marrow, ...

High throughput genomic assays empower us to study the entire human genome in short time with reasonable cost. Formalin fixed-paraffin-embedded (FFPE) tissue processing remains the most economical approach for longitudinal tissue specimen storage. Therefore, the ability to apply high throughput genomic applications to FFPE specimens can expand clinical assays and discovery. Many studies have me...