ArticleBioTechniques2016
The paraffin-embedded RNA metric (PERM) for RNA isolated from formalin-fixed, paraffin-embedded tissue.
Article in BioTechniques, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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Who cites it
12 citing papers in PubMed.
- The Application of Guanidinium to Improve Biomolecule Quality in Fixed, Paraffin-embedded Tissue.The journal of histochemistry and cytochemistry : official journal of the Histochemistry Society · 2023Article
- A Novel HPLC-Based Method to Investigate on RNA after Fixation.International journal of molecular sciences · 2020Article
- DV200 Index for Assessing RNA Integrity in Next-Generation Sequencing.BioMed research international · 2020Article
- Enhanced Quality Metrics for Assessing RNA Derived From Archival Formalin-Fixed Paraffin-Embedded Tissue Samples.Toxicological sciences : an official journal of the Society of Toxicology · 2019Article
- Extraction-free whole transcriptome gene expression analysis of FFPE sections and histology-directed subareas of tissue.PloS one · 2019Article
- Understanding preanalytical variables and their effects on clinical biomarkers of oncology and immunotherapy.Seminars in cancer biology · 2018Review
- Recommendations for mRNA analysis of micro-dissected glomerular tufts from paraffin-embedded human kidney biopsy samples.BMC molecular biology · 2018Article
- Histomorphological and Molecular Assessments of the Fixation Times Comparing Formalin and Ethanol-Based Fixatives.The journal of histochemistry and cytochemistry : official journal of the Histochemistry Society · 2018Article
- Rapid Loss of RNA Detection by In Situ Hybridization in Stored Tissue Blocks and Preservation by Cold Storage of Unstained Slides.American journal of clinical pathology · 2017Article
- Clinicopathological significance of miR-101-3p and c-myc mRNA expression in diffused large B-cell lymphoma.International journal of clinical and experimental pathology · 2017Article
- A melanin-bleaching methodology for molecular and histopathological analysis of formalin-fixed paraffin-embedded tissue.Laboratory investigation; a journal of technical methods and pathology · 2016Article
- A Buffered Alcohol-Based Fixative for Histomorphologic and Molecular Applications.The journal of histochemistry and cytochemistry : official journal of the Histochemistry Society · 2016Article
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Authors and funding
3 authors.
Funding
Abstract
RNA isolated from formalin-fixed, paraffin-embedded (FFPE) tissue is commonly evaluated in both investigative and diagnostic pathology. However, the quality of the data is directly impacted by RNA quality. The RNA integrity number (RIN), an algorithm based on a combination of electrophoretic features, is widely applied to RNA isolated from paraffin-embedded tissue, but it is a poor indicator of the quality of that RNA. Here we describe the novel paraffin-embedded RNA metric (PERM) for quantifying the quality of RNA from FFPE tissue. The PERM is based on a formula that approximates a weighted area-under-the-curve analysis of an electropherogram of the extracted RNA. Using biochemically degraded RNAs prepared from experimentally fixed mouse kidney specimens, we demonstrate that PERM values correlate with mRNA transcript measurements determined using the QuantiGene system. Furthermore, PERM values correlate with real-time PCR data. Our results demonstrate that the PERM can be used to qualify RNA for different end-point studies and may be a valuable tool for molecular studies using RNA extracted from FFPE tissue.
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