New approaches for genotyping paraffin wax embedded breast tissue from patients with cancer: The Iowa women's health study

Journal of Clinical Pathology

Volumn 58, Issue 9, 2005, Pages 955-961

  Thyagarajan, B ^b   Anderson, Kristin E ^b   Kong, F ^b   Selk, F R ^c   Lynch, C F ^c   Gross, Myron D ^a  

^a UNIVERSITY OF MINNESOTA MEDICAL SCHOOL   (United States)

^b UNIVERSITY OF MINNESOTA   (United States)

^c UNIVERSITY OF IOWA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

PARAFFIN;

ARTICLE; BREAST CANCER; CLINICAL ARTICLE; CONTROLLED STUDY; DNA EXTRACTION; FEASIBILITY STUDY; FEMALE; GENOTYPE; HUMAN; HUMAN TISSUE; LYMPH NODE; PRIORITY JOURNAL; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; SINGLE NUCLEOTIDE POLYMORPHISM;

BREAST NEOPLASMS; DNA REPAIR; DNA, NEOPLASM; FEASIBILITY STUDIES; FEMALE; GENOTYPE; HUMANS; PARAFFIN EMBEDDING; POLYMERASE CHAIN REACTION; POLYMORPHISM, RESTRICTION FRAGMENT LENGTH; POLYMORPHISM, SINGLE NUCLEOTIDE; SUPEROXIDE DISMUTASE;

EID: 24644456556     PISSN: 00219746     EISSN: None     Source Type: Journal    
DOI: 10.1136/jcp.2004.023374     Document Type: Article

References (21)

1. Zheng WAC, Deitz DR, Campbell WQ, et al. N-acetyltransferase 1 genetic polymorphism, cigarette smoking, well-done meat intake, and breast cancer risk. Cancer Epidemiol Biomarkers Prev 1999;8:233-9.
2. Deitz AGV, Zheng MA, Leff M, et al. N-acetyltransferase-2 genetic polymorphism, well-done meat intake, and breast cancer risk among postmenopausal women. Cancer Epidemiol Biomarkers Prev 2000;2:905-10.
3. Sachidanandam RD, Weissman SC, Schmidt JM, et al. A map of human genome sequence variation containing 1.42 million single nucleotide polymorphisms. Nature 2001;409:928-33.
4. Risch N, Merikangas K. The future of genetic studies of complex human diseases. Science 1996;273:1516-17.
5. Ohara Y, Honma M, Iwasaki Y. Sensitivity of the polymerase chain reaction for detecting human T-cell leukemia virus type I sequences in paraffin-embedded tissue. Effect of unbuffered formalin fixation. J Virol Metgods 1992;37:83-8.
6. Shi SR, Cote RJ, Wu L, et al. 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 2002;50:1005-11.
7. Sato YR, Sugie B, Tsuchiya T, et al. Comparison of the DNA extraction methods for polymerase chain reaction amplification from formalin-fixed and paraffin-embedded tissues. Diagn Mol Pathol 2001;10:265-71.
8. Blomeke B, Bennett WP, Harris CC, et al. Serum, plasma and paraffin-embedded tissues as sources of DNA for studying cancer susceptibility genes. Carcinogenesis 1997;18:1271-5.
9. Paris PL, Kupelian PA, Hall JM, et al. Association between a CYP3A4 genetic variant and clinical presentation in African-American prostate cancer patients. Cancer Epidemiol Biomarkers Prev 1999;8:901-5.
10. Carlson CS, Newman TL, Nickerson DA. SNPing in the human genome. Curr Opin Chem Biol 2001;5:78-85.
11. Miller SA, Dykes DD, Polesky HF. A simple salting out procedure for extracting DNA from human nucleated cells. Nucleic Acids Res 1988;16:1215.
12. Wan XS, Devalaraja MN, St Clair DK. Molecular structure and organization of the human manganese superoxide dismutase gene. DNA Cell Biol 1994;13:1127-36.
13. Grasbon-Frodl EM, Kosel S, Riess O, et al. Analysis of mitochondrial targeting sequence and coding region polymorphisms of the manganese superoxide dismutase gene in German Parkinson disease patients. Biochem Biophys Res Commun 1999;255:749-52.
14. de Arruda M, Lyamichev VI, Eis PS, et al. Invader technology for DNA and RNA analysis: principles and applications. Expert Rev Mol Diagn 2002;2:487-96.
15. Lyamichev V, Mast AL, Hall JG, et al. Polymorphism identification and quantitative detection of genomic DNA by invasive cleavage of oligonucleotide probes. Nat Biotechnol 1999;17:292-6.
16. Glasel JA. Validity of nucleic acid purities monitored by 260nm/280nm absorbance ratios. Biotechniques 1995;18:62-3.
17. Olivier M, Chuang LM, Chang MS, et al. High-throughput genotyping of single nucleotide polymorphisms using new biplex invader technology. Nucleic Acids Res 2002;30:e53.
18. Mein CA, Barratt BJ, Dunn MG, et al. Evaluation of single nucleotide polymorphism typing with invader on PCR amplicons and its automation. Genome Res 2000;10:330-43.
19. Ohnishi Y, Tanaka T, Ozaki K, et al. A high-throughput SNP typing system for genome-wide association studies. J Hum Genet 2001;46:471-7.
20. Inadome Y, Noguchi M. Selection of higher molecular weight genomic DNA for molecular diagnosis from formalin-fixed material. Diagn Mol Pathol 2003;12:231-6.
21. Rothman N, Stewart WF, Caporaso NE, et al. Misclassification of genetic susceptibility biomarkers: implications for case-control studies and cross-population comparisons. Cancer Epidemiol Biomarkers Prev 1993;2:299-303.