Whole Genome Amplification of DNA Extracted from FFPE Tissues

Methods in Molecular Biology

Volumn 724, Issue , 2011, Pages 161-180

  Bosso, Mira ^a   Al Mulla, Fahd ^a  

^a KUWAIT UNIVERSITY   (Kuwait)

Author keywords

Archived; Array CGH; Comparative genomic hybridization; DNA; Formalin fixed; GenomePlex ; Paraffin embedded tissue; PCR; Real time PCR; Whole genome amplification

Indexed keywords

DNA; FORMALDEHYDE; PARAFFIN; TISSUE EXTRACT;

AGAR GEL ELECTROPHORESIS; ALLELE; ARTICLE; CHEMISTRY; COMPARATIVE GENOMIC HYBRIDIZATION; FLUORESCENCE IN SITU HYBRIDIZATION; GENE DOSAGE; GENETICS; HUMAN; HUMAN GENOME; ISOLATION AND PURIFICATION; METHODOLOGY; MICRODISSECTION; MICROSCOPY; POLYMERASE CHAIN REACTION; REPRODUCIBILITY; SINGLE NUCLEOTIDE POLYMORPHISM; TISSUE FIXATION;

ALLELES; COMPARATIVE GENOMIC HYBRIDIZATION; DNA; ELECTROPHORESIS, AGAR GEL; FORMALDEHYDE; GENE DOSAGE; GENOME, HUMAN; HUMANS; IN SITU HYBRIDIZATION, FLUORESCENCE; MICRODISSECTION; MICROSCOPY; PARAFFIN EMBEDDING; POLYMERASE CHAIN REACTION; POLYMORPHISM, SINGLE NUCLEOTIDE; REPRODUCIBILITY OF RESULTS; TISSUE EXTRACTS; TISSUE FIXATION;

EID: 79958285669     PISSN: 10643745     EISSN: 19406029     Source Type: Book Series    
DOI: 10.1007/978-1-61779-055-3_11     Document Type: Chapter

References (21)

1. Kristjansson, K., Chong, S., Veyver, I., Subramanian, S., Snabes, M., and Hughes, M. (1994) Preimplantation single cell analyses of dystrophin gene deletions using whole genome amplification. Nature Genetics 6, 19–23.
2. Tanabe, C., Aoyagi, K., Sakiyama, T., Kohno, T., Yanagitani, N., Akimoto, S., et al. (2003) Evaluation of a whole-genome amplification method based on adaptor-ligation PCR of randomly sheared genomic DNA. Genes, Chromosomes & Cancer 38, 168–176.
3. Mueller, E. (2007) Genomic Analysis of Formalin-Fixed Paraffin Embedded (FFPE)
4. Hawkins, T., Detter, J., and Richardson, P. (2002) Whole genome amplification applications and advances. Current Opinion in Biotechnology 13, 65–67.
5. Hughes, S., Arneson, N., Done, S., and Squire, J. (2005) The use of whole genome amplification in the Study of human disease. Progress in Biophysics & Molecular Biology 88, 173–189.
6. Wells, D., Sherlick, J., Handyside, A., and Delhanty, J. (1999) Detailed chromosomal and molecular genetic analysis of single cells by whole genome amplification and comparative genomic hybridization. Nucleic Acids Research 27, 1214–1218.
7. Sermon, K., Lissens, W., Joris, H., Steirteghem, A., and Liebaers, I. (1996) Adaptation of the primer extension preamplification (PEP) reac-Tissues Through the Use of Whole Genome Amplification (WGA). http://www.sigmaal-dri ch. com/etc/medi al i b/docs/Si gma/ Gener al _I nf or mat i on/f f pewhi t epaper. Par.0001.File.tmp/ffpewhitepaper.pdf.
8. WGA5 Bulletin. http://www.sigmaaldrich. com/etc/medialib/docs/Sigma/Bulletin/wga5bul.Par.0001.File.tmp/wga5bul.pdf.
9. Whole Genome Amplification Advisor. http://www.sigmaaldrich.com/life-science/molecular-biology/whole-genome-amplifica-tion/promo/wga-advisor-download.html.
10. http://www.sigmaaldrich.com.
11. http://www. bi ocompare. com/consol e/sigma/genomeplex_video.asp.
12. Weiss, M., Hermsen, M., Meijer, G., van Grieken, N., Baak, J., Kuipers, E., and Van Diest, P. (1999) Comparative genomic hybridization. Journal of Clinical Pathology 52, 243–251.
13. Ng, G., Roberts, I., and Coleman, N. (2005) Evaluation of 3 methods of whole-genome amplification for subsequent metaphase comparative genomic hybridization. Diagnostic Molecular Pathology 14, 203–212.
14. Viera, A. and Garrett, J. (2005) Understanding interobserver agreement: the kappa statistic. Family Medicine 37, 360–363.
15. Chan, Y. (2003) Biostatistics 104: correlational analysis. Singapore Medical Journal 44, 614–619.
16. Snijders, A.M., Meijer, G.A., Brakenhoff, R.H., van den Brule, A.J.C., and van Diest, P.J. (2000) Microarray techniques in pathology: tool or toy? Journal of Clinical Pathology 53, 289–294.
17. Shaffer, G.L. and Bejjani, A.B. (2004) A cyto-geneticist’s perspective on genomic microarrays. Human Reproduction Update 10, 221–226.
18. Myles, P. and Cui, J. (2007) Using the Bland– Altman method to measure agreement with repeated measures. British Journal of Anaesthesia 99, 309–311.
19. Kirkwood, B. and Sterne, J. (2003) Essential medical statistics, 2nd edition, Blackwell Publishing Ltd, Oxford, UK, Chapter 36, 440–442.
20. Boulay, J.L., Reuter, J., Ritschard, R., Terracciano, L., Herrmann, R., and Rochlitz, C. (1999) Gene dosage by quantitative real-time PCR. BioTechniques 27, 228–232.
21. Allelic Discrimination Getting Started Guide for 7300/7500/7500 Fast Systems. © Copyright 2006, Applied Biosystems. All rights reserved.