Nucleic acids from long-term preserved FFPE tissues are suitable for downstream analyses

Virchows Archiv

Volumn 460, Issue 2, 2012, Pages 131-140

  Ludyga, Natalie ^a   Grünwald, Barbara ^a   Azimzadeh, Omid ^a   Englert, Sonja ^a   Höfler, Heinz ^a,b   Tapio, Soile ^a   Aubele, Michaela ^a  

^a INSTITUTE OF EPIDEMIOLOGY   (Germany)

^b TECHNICAL UNIVERSITY OF MUNICH   (Germany)

Author keywords

DNA; Long term preserved FFPE tissue; PCR; Rapid tissue lysis; RNA

Indexed keywords

ALCOHOL; BETA ACTIN; CHLOROFORM ISOAMYLALCOHOL; FORMALDEHYDE; NUCLEIC ACID; PARAFFIN; PHENOL; TATA BINDING PROTEIN ASSOCIATED FACTOR; UNCLASSIFIED DRUG; FIXATIVE;

AMPLICON; ARTICLE; COST EFFECTIVENESS ANALYSIS; DNA DETERMINATION; DNA ISOLATION; GENE DOSAGE; HUMAN; HUMAN CELL; HUMAN TISSUE; LABORATORY TEST; LYSIS; MOLECULAR DYNAMICS; MULTIPLEX POLYMERASE CHAIN REACTION; NUCLEIC ACID ANALYSIS; PRIORITY JOURNAL; RNA ISOLATION; TISSUE SECTION; ISOLATION AND PURIFICATION; METHODOLOGY; POLYMERASE CHAIN REACTION; TIME; TISSUE FIXATION;

FIXATIVES; FORMALDEHYDE; HUMANS; NUCLEIC ACIDS; PARAFFIN EMBEDDING; POLYMERASE CHAIN REACTION; TIME FACTORS; TISSUE FIXATION;

EID: 84859934922     PISSN: 09456317     EISSN: 14322307     Source Type: Journal    
DOI: 10.1007/s00428-011-1184-9     Document Type: Article

References (20)

1. AbrahamsenHN, Steiniche T, Nexo E, Hamilton-Dutoit SJ, Sorensen BS (2003) Towards quantitative mRNA analysis in paraffinembedded tissues using real-time reverse transcriptase-polymerase chain reaction: a methodological study on lymph nodes from melanoma patients. J Mol Diagn 5:34-41 (Pubitemid 36192998)
2. Kayser K, Stute H, Lübcke J, Wazinski U (1988) Rapid microwave fixation-a comparative morphometric study. Histochem J 20:347-352 (Pubitemid 18264033)
3. Perlmutter MA, Best CJ, Gillespie JW, Gathright Y, González S, Velasco A, Linehan WM, Emmert-Buck MR, Chuaqui RF (2004) Comparison of snap freezing versus ethanol fixation for gene expression profiling of tissue specimens. J Mol Diagn 6:371-377 (Pubitemid 39517406)
4. Gilbert MT, Haselkorn T, Bunce M, Sanchez JJ, Lucas SB, Jewell LD, Van Marck E, Worobey M (2007) The isolation of nucleic acids from fixed, paraffin-embedded tissues-which methods are useful when? PLoS One 2:e537
5. Bonin S, Hlubek F, Benhattar J, Denkert C, Dietel M, Fernandez PL, Höfler G, Kothmaier H, Kruslin B, Mazzanti CM et al (2010) Multicentre validation study of nucleic acids extraction from FFPE tissues. Virchows Arch 457:309-317
6. Huijsmans CJ, Damen J, van der Linden JC, Savelkoul PH, Hermans MH (2010) Comparative analysis of four methods to extract DNA from paraffin-embedded tissues: effect on downstream molecular applications. BMC Res Notes 3:239
7. Torrente MC, Ríos C, Misad C, Ramírez R, Acuña M, Cifuentes L (2010) DNA extraction from formalin-fixed laryngeal biopsies: comparison of techniques. Acta Otolaryngol 131:330-333
8. Bonin S, Petrera F, Niccolini B, Stanta G (2003) PCR analysis in archival postmortem tissues. Mol Pathol 56:184-186 (Pubitemid 36724231)
9. Jacobson TA, Lundahl J, Mellstedt H, Moshfegh A (2011) Gene expression analysis using long-term preserved formalin-fixed and paraffin-embedded tissue of non-small cell lung cancer. Int J Oncol 38:1075-1081
10. Gilbert MT, Sanchez JJ, Haselkorn T, Jewell LD, Lucas SB, Van Marck E, Boørsting C, Morling N, Worobey M (2007) Multiplex PCR with minisequencing as an effective high-throughput SNP typing method for formalin-fixed tissue. Electrophoresis 28:2361-2367 (Pubitemid 47162931)
11. Kristensen LS, Wojdacz TK, Thestrup BB, Wiuf C, Hager H, Hansen LL (2009) Quality assessment of DNA derived from up to 30 years old formalin fixed paraffin embedded (FFPE) tissue for PCR-based methylation analysis using SMART-MSP and MSHRM. BMC Cancer 9:453
12. Koch I, Slotta-Huspenina J, Hollweck R, Anastasov N, Höfler H, Quintanilla-Martinez L, Fend F (2006) Real-time quantitative RT-PCR shows variable, assay-dependent sensitivity to formalin fixation: implications for direct comparison of transcript levels in paraffin-embedded tissues. DiagnMol Pathol 15:149-156 (Pubitemid 44325476)
13. Pukelsheim F (1994) The three-sigma-rule. Am Stat 48:88-91
14. SchroederA,Mueller O, Stocker S, SalowskyR, LeiberM, Gassmann M, Lightfoot S, Menzel W, Granzow M, Ragg T (2006) The RIN: an RNA integrity number for assigning integrity values to RNAmeasurements. BMC Mol Biol 7:3
15. Ribeiro-Silva A, Zhang H, Jeffrey SS (2007) RNA extraction from ten year old formalin-fixed paraffin-embedded breast cancer samples: a comparison of column purification and magnetic bead-based technologies. BMCMol Biol 8:118
16. Tomizawa Y, Iijima H, Sunaga N, Sato K, Takise A, Otani Y, Tanaka S, Suga T, Saito R, Ishizuka T, Dobashi K, Minna JD, Nakajima T, Mori M (2005) Clinicopathologic significance of the mutations of the epidermal growth factor receptor gene in patients with non-small cell lung cancer. Clin Cancer Res 11:6816-6822 (Pubitemid 41428736)
17. Jarzab M, Rózanowski P, Kowalska M, Zebracka J, Rudnicka L, Stobiecka E, Jarzab B, Stachura J, Pawlega J (2008) Optimization of the method of RNA isolation from paraffin blocks to assess gene expression in breast cancer. Pol J Pathol 59:85-91 (Pubitemid 352029607)
18. Masuda N, Ohnishi T, Kawamoto S, Monden M, Okubo K (1999) Analysis of chemical modification of RNA from formalin-fixed samples and optimization of molecular biology applications for such samples. Nucleic Acids Res 27:4436-4443 (Pubitemid 29533185)
19. von Smolinski D, Leverkoehne I, von Samson-Himmelstjerna G, Gruber AD (2005) Impact of formalin-fixation and paraffinembedding on the ratio between mRNA copy numbers of differently expressed genes. Histochem Cell Biol 124:177-188 (Pubitemid 41429773)
20. Huang WY, Sheehy TM, Moore LE, Hsing AW, Purdue MP (2010) Simultaneous recovery of DNA and RNA from formalin-fixed paraffin-embedded tissue and application in epidemiologic studies. Cancer Epidemiol Biomarkers Prev 19:973-977