Nucleic acid extraction methods from fixed and paraffin-embedded tissues in cancer diagnostics

被引:0
作者
Bonin, Serena [1 ]
Stanta, Giorgio [1 ]
机构
[1] Univ Trieste, DSM Dept, Cattinara Hosp, I-34149 Trieste, Italy
关键词
automation; commercial kits; DNA; extraction; formalin-fixed paraffin-embedded tissues; quality control; RNA; tissue processing; AUTOMATED DNA EXTRACTION; RNA EXPRESSION ANALYSIS; PROTEOMIC ANALYSIS; GENE-EXPRESSION; FORMALIN FIXATION; QUALITY; PATHOLOGY; RECOVERY; PCR; OPTIMIZATION;
D O I
10.1586/ERM.13.14
中图分类号
R36 [病理学];
学科分类号
100104 ;
摘要
Diagnostic tests, based on nucleic acid extracts from formalin-fixed and paraffin-embedded tissues, are now becoming increasingly common due to the introduction of biological agents for cancer therapy. Unfortunately, the formalin-fixed and paraffin-embedded tissues are heterogeneous in terms of processing and tissue type, and this has an impact on downstream molecular techniques, especially RNA-based techniques. The present review deals with most of the variables connected to the extraction of nucleic acids from formalin-fixed paraffin-embedded tissues, ranging from tissue processing to quality control of extracts. The most recent peer-reviewed publications (mostly published in the past 5 years) and information provided by company websites have been analyzed to compile this review.
引用
收藏
页码:271 / 282
页数:12
相关论文
共 97 条
[51]   Effective DNA/RNA Co-Extraction for Analysis of MicroRNAs, mRNAs, and Genomic DNA from Formalin-Fixed Paraffin-Embedded Specimens [J].
Kotorashvili, Adam ;
Ramnauth, Andrew ;
Liu, Christina ;
Lin, Juan ;
Ye, Kenny ;
Kim, Ryung ;
Hazan, Rachel ;
Rohan, Thomas ;
Fineberg, Susan ;
Loudig, Olivier .
PLOS ONE, 2012, 7 (04)
[52]   Applicability of a System for Fully Automated Nucleic Acid Extraction From Formalin-fixed Paraffin-embedded Sections for Routine KRAS Mutation Testing [J].
Lehmann, Annika ;
Schewe, Christiane ;
Hennig, Guido ;
Denkert, Carsten ;
Weichert, Wilko ;
Budczies, Jan ;
Dietel, Manfred .
DIAGNOSTIC MOLECULAR PATHOLOGY, 2012, 21 (02) :114-119
[53]   Improved RNA quality and TaqMan® Pre-amplification method (PreAmp) to enhance expression analysis from formalin fixed paraffin embedded (FFPE) materials [J].
Li, Jinghuan ;
Smyth, Paul ;
Cahill, Susanne ;
Denning, Karen ;
Flavin, Richard ;
Aherne, Sinead ;
Pirotta, Marco ;
Guenther, Simone M. ;
O'Leary, John J. ;
Sheils, Orla .
BMC BIOTECHNOLOGY, 2008, 8 (1)
[54]   High-quality genomic DNA extraction from formalin-fixed and paraffin-embedded samples deparaffinized using mineral oil [J].
Lin, Jianghai ;
Kennedy, Stephen H. ;
Svarovsky, Therese ;
Rogers, Jeffrey ;
Kemnitz, Joseph W. ;
Xu, Anlong ;
Zondervan, Krina T. .
ANALYTICAL BIOCHEMISTRY, 2009, 395 (02) :265-267
[55]   Methods comparison for high-resolution transcriptional analysis of archival material on Affymetrix Plus 2.0 and Exon 1.0 microarrays [J].
Linton, Kim M. ;
Hey, Yvonne ;
Dibben, Sian ;
Miller, Crispin J. ;
Freemont, Anthony J. ;
Radford, John A. ;
Pepper, Stuart D. .
BIOTECHNIQUES, 2009, 47 (01) :587-+
[56]   Nucleic acids from long-term preserved FFPE tissues are suitable for downstream analyses [J].
Ludyga, Natalie ;
Gruenwald, Barbara ;
Azimzadeh, Omid ;
Englert, Sonja ;
Hoefler, Heinz ;
Tapio, Soile ;
Aubele, Michaela .
VIRCHOWS ARCHIV, 2012, 460 (02) :131-140
[57]   Comparison of formalin and FineFIX in preserving DNA material in small biopsies [J].
Mahjoub, Fatemeh ;
Zarei, Abdolmajid ;
Jahanzad, Issa ;
Shahsiah, Reza ;
Derakhshandeh, Soudabeh ;
Najafi, Mehri .
PATHOLOGY INTERNATIONAL, 2008, 58 (10) :678-680
[58]   Liquid Chromatography-Tandem and MALDI Imaging Mass Spectrometry Analyses of RCL2/CS100-Fixed, Paraffin-Embedded Tissues: Proteomics Evaluation of an Alternate Fixative for Biomarker Discovery [J].
Mange, Alain ;
Chaurand, Pierre ;
Perrochia, Helene ;
Roger, Pascal ;
Caprioli, Richard M. ;
Solassol, Jerome .
JOURNAL OF PROTEOME RESEARCH, 2009, 8 (12) :5619-5628
[59]   RCL2, a potential formalin substitute for tissue fixation in routine pathological specimens [J].
Masir, Noraidah ;
Ghoddoosi, Mahdiieh ;
Mansor, Suhada ;
Abdul-Rahman, Faridah ;
Florence, Chandramaya S. ;
Mohamed-Ismail, Nor Azlin ;
Tamby, Mohammad-Rafaee ;
Md-Latar, Nani Harlina .
HISTOPATHOLOGY, 2012, 60 (05) :804-815
[60]   Analysis of chemical modification of RNA from formalin-fixed samples and optimization of molecular biology applications for such samples [J].
Masuda, N ;
Ohnishi, T ;
Kawamoto, S ;
Monden, M ;
Okubo, K .
NUCLEIC ACIDS RESEARCH, 1999, 27 (22) :4436-4443