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MicroRNAs

MicroRNAs

MicroRNA (miRNA) are short, regulatory RNA transcribed from introns (non-coding regions of a gene) or intergenic regions (stretches of DNA present between genes). Several processing steps are required to form biologically active, mature miRNA. The initial transcript, called primary miRNA (pri-mRNA), base-pairs with itself, forming a stem-loop structure. Within the nucleus, an endonuclease enzyme, called Drosha, shortens the stem-loop structure into hairpin-shaped pre-miRNA. After the pre-miRNA...

MicroRNAs

MicroRNAs

MicroRNA (miRNA) are short, regulatory RNA transcribed from introns—non-coding regions of a gene—or intergenic regions—stretches of DNA present between genes. Several processing steps are required to form biologically active, mature miRNA. The initial transcript, called primary miRNA (pri-mRNA), base-pairs with itself forming a stem-loop structure. Within the nucleus, an endonuclease enzyme, called Drosha, shortens the stem-loop structure into hairpin-shaped pre-miRNA. After the pre-miRNA ends...

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Related Experiment Video

Updated: Jun 21, 2026

Retrospective MicroRNA Sequencing: Complementary DNA Library Preparation Protocol Using Formalin-fixed Paraffin-embedded RNA Specimens

Retrospective MicroRNA Sequencing: Complementary DNA Library Preparation Protocol Using Formalin-fixed Paraffin-embedded RNA Specimens

Published on: May 5, 2018

MicroRNA expression profiling outperforms mRNA expression profiling in formalin-fixed paraffin-embedded tissues.

Aihua Liu¹, Michael T Tetzlaff, Pat Vanbelle

¹Department of Pathology and Laboratory Medicine 6 Founders Pavilion, The Hospital for the University of Pennsylvania, 3400 Spruce Street, Philadelphia, PA, USA.

International Journal of Clinical and Experimental Pathology

|July 29, 2009

Summary

Formalin-fixed paraffin-embedded (FFPE) tissues are suitable for microRNA (miRNA) expression analysis. miRNA profiles from FFPE tissues closely resemble fresh frozen tissues, making them valuable for molecular studies.

Keywords:

formalin-fixed paraffin-embedded (FFPE)melanoma miRNA microarray

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Last Updated: Jun 21, 2026

Retrospective MicroRNA Sequencing: Complementary DNA Library Preparation Protocol Using Formalin-fixed Paraffin-embedded RNA Specimens

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Published on: May 5, 2018

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Cerebrospinal Fluid MicroRNA Profiling Using Quantitative Real Time PCR

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Published on: January 22, 2014

Area of Science:

Molecular Biology
Genomics
Cancer Research

Background:

microRNAs (miRNAs) are key regulators of gene expression.
Altered miRNA expression is linked to various human cancers.
Current miRNA profiling often requires fresh tissue samples.

Purpose of the Study:

To compare miRNA expression profiles between formalin-fixed paraffin-embedded (FFPE) and fresh frozen malignant melanoma tissues.
To assess the suitability of FFPE tissues for miRNA expression analysis.
To compare the stability of miRNA versus mRNA profiles from FFPE tissues.

Main Methods:

Total RNA extraction from paired FFPE and fresh frozen malignant melanoma samples.
Microarray experiments to analyze miRNA and mRNA expression profiles.
Comparative analysis of expression profiles between tissue types.

Main Results:

miRNA expression profiles from FFPE tissues showed high similarity to those from fresh frozen tissues.
The correlation of miRNA profiles between FFPE and fresh tissues was significantly better than that for mRNA profiles.
FFPE tissues are a viable resource for miRNA molecular expression analyses.

Conclusions:

FFPE tissues are suitable for robust miRNA expression profiling.
miRNAs are more stable analytes than mRNAs for expression studies using FFPE tissues.
This finding expands the utility of archival FFPE samples in cancer research.