Genomic analysis by oligonucleotide array comparative genomic hybridization utilizing formalin-fixed, paraffin-embedded tissues

Methods in Molecular Biology

Volumn 700, Issue , 2011, Pages 185-198

  Savage, Stephanie J ^a   Hostetter, Galen ^a  

^a TRANSLATIONAL GENOMICS RESEARCH INSTITUTE   (United States)

Author keywords

Archival; Array comparative genomic hybridization; Formalin fixed paraffin embedded; Gene dosage; Long oligonucleotides

Indexed keywords

FORMALDEHYDE; GENOMIC DNA; PARAFFIN;

AGAR GEL ELECTROPHORESIS; ARTICLE; COMPARATIVE GENOMIC HYBRIDIZATION; DNA EXTRACTION; DNA MICROARRAY; ENZYME METABOLISM; EXTRACTION; GENETIC ANALYSIS; HISTOLOGY; HUMAN; HUMAN TISSUE; PRIORITY JOURNAL; CHEMISTRY; GENETIC ASSOCIATION; METHODOLOGY; TISSUE FIXATION;

COMPARATIVE GENOMIC HYBRIDIZATION; FORMALDEHYDE; GENOME-WIDE ASSOCIATION STUDY; HUMANS; PARAFFIN EMBEDDING; TISSUE FIXATION;

EID: 79955669104     PISSN: 10643745     EISSN: None     Source Type: Book Series    
DOI: 10.1007/978-1-61737-954-3_13     Document Type: Article

References (14)

1. Srinivasan M, Sedmak D, Jewell S (2002) Effect of fixatives and tissue processing on the content and integrity of nucleic acids. Am J Pathol 161:1961-1971
2. Shi SR, Cote RJ, Wu L, Liu C, Datar R, Shi Y et al (2002) DNA extraction from archival formalin-fixed, paraffin-embedded tissue sections based on the antigen retrieval principle: heating under the influence of pH. J Histochem Cytochem 50:1005-1011
3. Wang F, Wang L, Briggs C, Sicinska E, Gaston SM, Mamon H et al (2007) DNA degradation test predicts success in whole-genome amplification from diverse clinical samples. J Mol Diagn 9:441-451
4. Dubeau L, Chandler LA, Gralow JR, Nichols PW, Jones PA (1986) Southern blot analysis of DNA extracted from formalin-fixed pathology specimens. Cancer Res 46:2964-2969
5. Shibata D, Martin WJ, Arnheim N (1988) Analysis of DNA sequences in forty-year-old paraffin-embedded thin-tissue sections: a bridge between molecular biology and classical histology. Cancer Res 48:4564-4566
6. Ben-Ezra J, Johnson DA, Rossi J, Cook N, Wu A (1991) Effect of fixation on the amplification of nucleic acids from paraffin-embedded material by the polymerase chain reaction. J Histochem Cytochem 39:351-354
7. Serth J, Kuczyk MA, Paeslack U, Lichtinghagen R, Jonas U (2000) Quantitation of DNA extracted after micropreparation of cells from frozen and formalin-fixed tissue sections. Am J Pathol 156:1189-1196
8. Kallioniemi A, Kallioniemi OP, Sudar D, Rutovitz D, Gray JW, Waldman F et al (1992) Comparative genomic hybridization for molecular cytogenetic analysis of solid tumors. Science 258:818-821
9. Burtis CA, Ashwood ER, Aldrich JE, Tietz NW (1996) Tietz fundamentals of clinical chemistry, 4th edn. W.B Saunders, Philadelphia
10. Gershon D (2005) DNA microarrays: more than gene expression. Nature 437:1195-1198
11. Paris PL, Sridharan S, Scheffer A, Tsalenko A, Bruhn L, Collins C (2007) High resolution oligonucleotide CGH using DNA from archived prostate tissue. Prostate 67:1447-1455
12. Tilstone C (2003) DNA microarrays: vital statistics. Nature 424:610-612
13. Agilent Technologies (2006) Agilent oligonucleotide array-based CGH for genomic DNA analysis, 4.0 edn. Agilent Technologies, Santa Clara
14. Invitrogen (2004) BioPrime Array CGH Genomic Labeling System. Invitrogen, Carlsbad