Cracking it - successful mRNA extraction for digital gene expression analysis from decalcified, formalin-fixed and paraffin-embedded bone tissue.
Alireza SarajiAnne OffermannJanine Stegmann-FrehseKatharina HempelDuan KangRosemarie KruparChristian WatermannDanny JonigkMark Philipp KühnelJutta KirfelSven PernerVerena SailerPublished in: PloS one (2021)
With the advance of precision medicine, the availability of tumor tissue for molecular analysis has become a limiting factor. This is particularly the case for bone metastases which are frequently occurring in cancer types such as prostate cancer. Due to the necessary decalcification process it was long thought that transcriptome analysis will not be feasible from decalcified formalin-fixed, paraffin-embedded (DFFPE) in a large manner. Here we demonstrate that mRNA extraction from DFFPE is feasible, quick, robust and reproducible and that decalcification does not hamper subsequent gene expression analysis. This might assist in implementing transcriptome analysis from DFFPE into every day practice.
Keyphrases
- genome wide identification
- prostate cancer
- transcription factor
- copy number
- genome wide
- papillary thyroid
- healthcare
- primary care
- radical prostatectomy
- quality improvement
- binding protein
- bone mineral density
- squamous cell carcinoma
- squamous cell
- gene expression
- dna methylation
- soft tissue
- bone loss
- genome wide analysis
- lymph node metastasis
- bone regeneration