Related Experiment Video
Updated: May 1, 2026
Preparation of Formalin-fixed Paraffin-embedded Tissue Cores for both RNA and DNA Extraction
Published on: August 21, 2016
Comparison of methods for the extraction of DNA from formalin-fixed, paraffin-embedded archival tissues
Burcu Sengüven1, Emre Baris1, Tulin Oygur1
11. Department of Oral Pathology, Faculty of Dentistry, Gazi University, Ankara, Turkey;
Aim:
Discussing a protocol involving xylene-ethanol deparaffinization on slides followed by a kit-based extraction that allows for the extraction of high quality DNA from FFPE tissues.
Methods:
DNA was extracted from the FFPE tissues of 16 randomly selected blocks. Methods involving deparaffinization on slides or tubes, enzyme digestion overnight or for 72 hours and isolation using phenol chloroform method or a silica-based commercial kit were compared in terms of yields, concentrations and the amplifiability.
Results:
The highest yield of DNA was produced from the samples that were deparaffinized on slides, digested for 72 hours and isolated with a commercial kit. Samples isolated with the phenol-chloroform method produced DNA of lower purity than the samples that were purified with kit. The samples isolated with the commercial kit resulted in better PCR amplification.
Conclusion:
Silica-based commercial kits and deparaffinized on slides should be considered for DNA extraction from FFPE.
More Related Videos
13:32DNA Extraction from Paraffin Embedded Material for Genetic and Epigenetic Analyses
Published on: March 26, 2011
10:21Protocol for HER2 FISH Using a Non-cross-linking, Formalin-free Tissue Fixative to Combine Advantages of Cryo-preservation and Formalin Fixation
Published on: December 25, 2017
Related Concept Videos
01:24DNA Isolation
01:03Fixation and Sectioning
The simplest type of preparation is the wet mount, in which the specimen is placed in a drop of liquid on the slide. A liquid specimen can be directly deposited on the slide using a dropper. Solid specimens, such as skin scraping, can be placed on the slide before adding a drop of liquid to prepare the wet mount. Sometimes the liquid is simply water, but stains are often added...