Literature DB >> 18679706

RNA expression analysis from formalin fixed paraffin embedded tissues.

Susan M Farragher1, Austin Tanney, Richard D Kennedy, D Paul Harkin.   

Abstract

Formalin fixation and paraffin embedding (FFPE) is the most commonly used method worldwide for tissue storage. This method preserves the tissue integrity but causes extensive damage to nucleic acids stored within the tissue. As methods for measuring gene expression such as RT-PCR and microarray are adopted into clinical practice there is an increasing necessity to access the wealth of information locked in the Formalin fixation and paraffin embedding archives. This paper reviews the progress in this field and discusses the unique opportunities that exist for the application of these techniques in the development of personalized medicine.

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Year:  2008        PMID: 18679706     DOI: 10.1007/s00418-008-0479-7

Source DB:  PubMed          Journal:  Histochem Cell Biol        ISSN: 0948-6143            Impact factor:   4.304


  59 in total

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Journal:  Nat Med       Date:  2002-01       Impact factor: 53.440

2.  Successful application of microarray technology to microdissected formalin-fixed, paraffin-embedded tissue.

Authors:  Renata A Coudry; Sibele I Meireles; Radka Stoyanova; Harry S Cooper; Alan Carpino; Xianqun Wang; Paul F Engstrom; Margie L Clapper
Journal:  J Mol Diagn       Date:  2007-02       Impact factor: 5.568

3.  A simple and rapid method for the detection of RNA in formalin-fixed, paraffin-embedded tissues by PCR amplification.

Authors:  F von Weizsäcker; S Labeit; H K Koch; W Oehlert; W Gerok; H E Blum
Journal:  Biochem Biophys Res Commun       Date:  1991-01-15       Impact factor: 3.575

4.  RNA extracted from paraffin-embedded human tissues is amenable to analysis by PCR amplification.

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Journal:  Biotechniques       Date:  1991-09       Impact factor: 1.993

5.  The role of DNase and EDTA on DNA degradation in formaldehyde fixed tissues.

Authors:  N Yagi; K Satonaka; M Horio; H Shimogaki; Y Tokuda; S Maeda
Journal:  Biotech Histochem       Date:  1996-05       Impact factor: 1.718

Review 6.  Reactions of nucleic acids and nucleoproteins with formaldehyde.

Authors:  M Y Feldman
Journal:  Prog Nucleic Acid Res Mol Biol       Date:  1973

7.  The HOXB13:IL17BR expression index is a prognostic factor in early-stage breast cancer.

Authors:  Xiao-Jun Ma; Susan G Hilsenbeck; Wilson Wang; Li Ding; Dennis C Sgroi; Richard A Bender; C Kent Osborne; D Craig Allred; Mark G Erlander
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8.  RNA expression analysis of formalin-fixed paraffin-embedded tumors.

Authors:  Shannon K Penland; Temitope O Keku; Chad Torrice; Xiaping He; Janakiraman Krishnamurthy; Katherine A Hoadley; John T Woosley; Nancy E Thomas; Charles M Perou; Robert S Sandler; Norman E Sharpless
Journal:  Lab Invest       Date:  2007-02-12       Impact factor: 5.662

9.  Preliminary comparison of quantity, quality, and microarray performance of RNA extracted from formalin-fixed, paraffin-embedded, and unfixed frozen tissue samples.

Authors:  Marshall S Scicchitano; Deidre A Dalmas; Melissa A Bertiaux; Shawn M Anderson; Leah R Turner; Roberta A Thomas; Rossana Mirable; Rogely W Boyce
Journal:  J Histochem Cytochem       Date:  2006-07-24       Impact factor: 2.479

10.  Detection of specific polymerase chain reaction product by utilizing the 5'----3' exonuclease activity of Thermus aquaticus DNA polymerase.

Authors:  P M Holland; R D Abramson; R Watson; D H Gelfand
Journal:  Proc Natl Acad Sci U S A       Date:  1991-08-15       Impact factor: 11.205

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  73 in total

1.  Simultaneous recovery of DNA and RNA from formalin-fixed paraffin-embedded tissue and application in epidemiologic studies.

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Journal:  Cancer Epidemiol Biomarkers Prev       Date:  2010-03-23       Impact factor: 4.254

2.  Quantitative expression profiling in formalin-fixed paraffin-embedded samples by affymetrix microarrays.

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3.  Microarray analyses of laser-captured hippocampus reveal distinct gray and white matter signatures associated with incipient Alzheimer's disease.

Authors:  Eric M Blalock; Heather M Buechel; Jelena Popovic; James W Geddes; Philip W Landfield
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Review 4.  State-of-the-art technologies, current opinions and developments, and novel findings: news from the field of histochemistry and cell biology.

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5.  Comparison of clinical targeted next-generation sequence data from formalin-fixed and fresh-frozen tissue specimens.

Authors:  David H Spencer; Jennifer K Sehn; Haley J Abel; Mark A Watson; John D Pfeifer; Eric J Duncavage
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6.  High-throughput quantification of splicing isoforms.

Authors:  Jean-Philippe Brosseau; Jean-François Lucier; Elvy Lapointe; Mathieu Durand; Daniel Gendron; Julien Gervais-Bird; Karine Tremblay; Jean-Pierre Perreault; Sherif Abou Elela
Journal:  RNA       Date:  2009-12-28       Impact factor: 4.942

Review 7.  Extending the knowledge in histochemistry and cell biology.

Authors:  Wolfgang-Moritz Heupel; Detlev Drenckhahn
Journal:  Histochem Cell Biol       Date:  2009-11-28       Impact factor: 4.304

8.  Transcriptional profiling of dividing tumor cells detects intratumor heterogeneity linked to cell proliferation in a brain tumor model.

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Review 9.  Genomic markers for decision making: what is preventing us from using markers?

Authors:  Vicky M Coyle; Patrick G Johnston
Journal:  Nat Rev Clin Oncol       Date:  2009-12-15       Impact factor: 66.675

10.  miRNA expressions in rectal cancer as predictors of response to neoadjuvant chemoradiation therapy.

Authors:  Elrasheid A H Kheirelseid; Nicola Miller; Kah Hoong Chang; Catherine Curran; Emer Hennessey; Margaret Sheehan; John Newell; Christophe Lemetre; Graham Balls; Michael J Kerin
Journal:  Int J Colorectal Dis       Date:  2012-08-18       Impact factor: 2.571

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