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DNA Isolation

DNA Isolation

DNA isolation protocols can be fast and straightforward or complex and time-consuming depending on the type and quality of DNA required for further processing. For example, plasmid DNA extraction is a bit more complicated than genomic DNA extraction because of the need for an appropriate lysis method to separate plasmid DNA from gDNA during isolation. However, for specific applications, such as long-range DNA sequencing that require a good yield of high- quality DNA samples, we need to follow...

DNA Isolation

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Related Experiment Video

Updated: Apr 8, 2026

DNA Extraction from Paraffin Embedded Material for Genetic and Epigenetic Analyses

DNA Extraction from Paraffin Embedded Material for Genetic and Epigenetic Analyses

Published on: March 26, 2011

Genomic DNA extraction methods using formalin-fixed paraffin-embedded tissue.

Keerti Potluri¹, Ahmed Mahas¹, Michael N Kent²

¹Department of Biochemistry and Molecular Biology, Wright State University, Dayton, OH 45435, USA.

Analytical Biochemistry

|July 2, 2015

Summary

This summary is machine-generated.

Adaptive focused acoustics (AFA) improves DNA extraction from formalin-fixed paraffin-embedded (FFPE) tissues. AFA yields higher quality DNA, increasing amplicon length and reducing polymerase chain reaction (PCR) failure rates for array-based comparative genomic hybridization (aCGH).

Keywords:

Adaptive focused acoustics Array comparative genomic hybridization DNA extraction FFPE RAPD–PCR aCGH

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DNA Extraction from Paraffin Embedded Material for Genetic and Epigenetic Analyses

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Published on: March 26, 2011

Preparation of Formalin-fixed Paraffin-embedded Tissue Cores for both RNA and DNA Extraction

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Proteomic Sample Preparation from Formalin Fixed and Paraffin Embedded Tissue

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Published on: September 2, 2013

Area of Science:

Genetics and Genomics
Molecular Biology
Biotechnology

Background:

Advancements in cytogenetic technologies have increased resolution from karyotyping to next-generation sequencing.
Array-based comparative genomic hybridization (aCGH) offers high resolution at a reduced cost but requires high-quality DNA.
Obtaining sufficient DNA quantity and quality from formalin-fixed paraffin-embedded (FFPE) tissues for aCGH is challenging.

Purpose of the Study:

To compare three DNA extraction methods for FFPE tissues to assess suitability for aCGH and downstream applications.
To evaluate the efficacy of adaptive focused acoustics (AFA) against traditional phenol-chloroform extraction and commercial kits.

Main Methods:

Comparison of DNA extraction from FFPE tissues using phenol-chloroform extraction, commercial column-based kits, and adaptive focused acoustics (AFA).
Assessment of DNA quality based on length, purity, and amplifiability for downstream applications like aCGH.
Evaluation of polymerase chain reaction (PCR) failure rates.

Main Results:

DNA extracted using AFA demonstrated increased amplicon length compared to other methods.
AFA samples exhibited a decreased polymerase chain reaction (PCR) failure rate.
These results indicate superior DNA quality and amplifiability from FFPE tissues using AFA.

Conclusions:

Adaptive focused acoustics (AFA) is an improved method for DNA extraction from FFPE tissues.
AFA facilitates the acquisition of high-quality DNA suitable for array-based comparative genomic hybridization (aCGH) and other molecular analyses.
This technique addresses a critical challenge in utilizing FFPE samples for advanced genomic studies.