Moderate degradation does not preclude microarray analysis of small amounts of RNA

BioTechniques

Volumn 35, Issue 6, 2003, Pages 1192-1201

  Schoor, Oliver ^a   Weinschenk, Toni ^a   Hennenlotter, Jörg ^a   Corvin, Stefan ^a   Stenzl, Arnulf ^a   Rammensee, Hans Georg ^a   Stevanović, Stefan ^a  

^a UNIVERSITY OF TÜBINGEN   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

DEGRADATION; GENES; TUMORS;

MICROARRAYS;

RNA;

DNA; OLIGONUCLEOTIDE; RIBONUCLEASE; RNA;

ARTICLE; CHROMOSOME MICRODISSECTION; DNA DETERMINATION; DNA MICROARRAY; GENE EXPRESSION; GENETIC ANALYSIS; POLYMERASE CHAIN REACTION; RNA DEGRADATION; RNA TRANSCRIPTION;

EID: 0345168051     PISSN: 07366205     EISSN: None     Source Type: Journal    
DOI: 10.2144/03356rr01     Document Type: Article

References (18)

1. Panda, S., T.K. Sato, G.M. Hampton, and J.B. Hogenesch. 2003. An array of insights: application of DNA chip technology in the study of cell biology. Trends Cell Biol. 13:151-156.
2. Sevenet, N. and O. Cussenot. 2003. DNA microarrays in clinical practice: past, present, and future. Clin. Exp. Med. 3:1-3.
3. Iscove, N.N., M. Barbara, M. Gu, M. Gibson, C. Modi, and N. Winegarden. 2002. Representation is faithfully preserved in global cDNA amplified exponentially from sub-picogram quantities of mRNA. Nat. Biotechnol. 20:940-943.
4. Klein, C.A., S. Seidl, K. Petat-Dutter, S. Offner, J.B. Geigl, O. Schmidt-Kittler, N. Wendler, B. Passlick, et al. 2002. Combined transcriptome and genome analysis of single micrometastatic cells. Nat. Biotechnol. 20:387-392.
5. Van Gelder, R.N., M.E. von Zastrow, A. Yool, W.C. Dement, J.D. Barchas, and J.H. Eberwine. 1990. Amplified RNA synthesized from limited quantities of heterogeneous cDNA. Proc. Natl. Acad. Sci. USA 87:1663-1667.
6. Luo, L., R.C. Salunga, H. Guo, A. Bittner, K.C. Joy, J.E. Galindo, H. Xiao, K.E. Rogers, et al. 1999. Gene expression profiles of laser-captured adjacent neuronal subtypes. Nat. Med. 5:117-122.
7. Ohyama, H., X. Zhang, Y. Kohno, I. Alevizos, M. Posner, D.T. Wong, and R. Todd. 2000. Laser capture microdissection-generated target sample for high-density oligonucleotide array hybridization. BioTechniques 29:530-536.
8. Luzzi, V., V. Holtschlag, and M.A. Watson. 2001. Expression profiling of ductal carcinoma in situ by laser capture microdissection and high-density oligonucleotide arrays. Am. J. Pathol. 158:2005-2010.
9. Scheidl, S.J., S. Nilsson, M. Kalen, M. Hellstrom, M. Takemoto, J. Hakansson, and P. Lindahl. 2002. mRNA expression profiling of laser microbeam microdissected cells from slender embryonic structures. Am. J. Pathol. 160:801-813.
10. Baugh, L.R., A.A. Hill, E.L. Brown, and C.P. Hunter. 2001. Quantitative analysis of mRNA amplification by in vitro transcription. Nucleic Acids Res. 29:E29.
11. Feldman, A.L., N.G. Costouros, E. Wang, M. Qian, F.M. Marincola, H.R. Alexander, and S.K. Libutti. 2002. Advantages of mRNA amplification for microarray analysis. BioTechniques 33:906-914.
12. Zhao, H., T. Hastie, M.L. Whitfield, A.L. Borresen-Dale, and S.S. Jeffrey. 2002. Optimization and evaluation of T7 based RNA linear amplification protocols for cDNA microarray analysis. BMC Genomics 3:31.
13. Luzzi, V., M. Mahadevappa, R. Raja, J.A. Warrington, and M.A. Watson. 2003. Accurate and reproducible gene expression profiles from laser capture microdissection, transcript amplification, and high density oligonucleotide microarray analysis. J. Mol. Diagn. 5:9-14.
14. McClintick, J.N., R.E. Jerome, C.R. Nicholson, D.W. Crabb, and H.J. Edenberg. 2003. Reproducibility of oligonucleotide arrays using small samples. BMC Genomics 4:4.
15. Nygaard, V., A. Loland, M. Holden, M. Langaas, H. Rue, F. Liu, O. Myklebost, O. Fodstad, et al. 2003. Effects of mRNA amplification on gene expression ratios in cDNA experiments estimated by analysis of variance. BMC Genomics 4:11.
16. Wang, J., L. Hu, S.R. Hamilton, K.R. Coombes, and W. Zhang. 2003. RNA amplification strategies for cDNA microarray experiments. BioTechniques 34:394-400.
17. Dash, A., I.P. Maine, S. Varambally, R. Shen, A.M. Chinnaiyan, and M.A. Rubin. 2002. Changes in differential gene expression because of warm ischemia time of radical prostatectomy specimens. Am. J. Pathol. 161:1743-1748.
18. Xiang, C.C., M. Chen, L. Ma, Q.N. Phan, J.M. Inman, O.A. Kozhich, and M.J. Brownstein. 2003. A new strategy to amplify degraded RNA from small tissue samples for microarray studies. Nucleic Acids Res. 31:e53.