Int J Med Sci
2014; 11(5):494-499.
doi:10.7150/ijms.8842 This issueCite
Research Paper
Comparison of Methods for the Extraction of DNA from Formalin-Fixed, Paraffin-Embedded Archival Tissues
Burcu Sengüven1✉, Emre Baris1, Tulin Oygur1, Mehmet Berktas2
1. Department of Oral Pathology, Faculty of Dentistry, Gazi University, Ankara, Turkey; 2. Pharmacoeconomy and Pharmacoepidemiology Research Center (PEPIRC), Yeditepe University, Istanbul, Turkey.
✉ Corresponding author: Dr. Burcu Sengüven, Department of Oral Pathology, Faculty of Dentistry, Gazi University. ANKARA 06510, TURKEY. Telephone: +90 312 2034384 Fax: +90312 2239226 E-mail: senguvenbcom.
Citation:
Sengüven B, Baris E, Oygur T, Berktas M. Comparison of Methods for the Extraction of DNA from Formalin-Fixed, Paraffin-Embedded Archival Tissues. Int J Med Sci 2014; 11(5):494-499. doi:10.7150/ijms.8842. https://www.medsci.org/v11p0494.htm
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.
Keywords: DNA extraction, formalin fixed paraffin-embedded tissues.
Citation styles
APA
Sengüven, B., Baris, E., Oygur, T., Berktas, M. (2014). Comparison of Methods for the Extraction of DNA from Formalin-Fixed, Paraffin-Embedded Archival Tissues. International Journal of Medical Sciences, 11(5), 494-499. https://doi.org/10.7150/ijms.8842.
ACS
Sengüven, B.; Baris, E.; Oygur, T.; Berktas, M. Comparison of Methods for the Extraction of DNA from Formalin-Fixed, Paraffin-Embedded Archival Tissues. Int. J. Med. Sci. 2014, 11 (5), 494-499. DOI: 10.7150/ijms.8842.
NLM
Sengüven B, Baris E, Oygur T, Berktas M. Comparison of Methods for the Extraction of DNA from Formalin-Fixed, Paraffin-Embedded Archival Tissues. Int J Med Sci 2014; 11(5):494-499. doi:10.7150/ijms.8842. https://www.medsci.org/v11p0494.htm
CSE
Sengüven B, Baris E, Oygur T, Berktas M. 2014. Comparison of Methods for the Extraction of DNA from Formalin-Fixed, Paraffin-Embedded Archival Tissues. Int J Med Sci. 11(5):494-499.