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Odontogenesis pp 95–110Cite as

Deoxyoligonucleotide Microarrays for Gene Expression Profiling in Murine Tooth Germs

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Part of the book series: Methods in Molecular Biology ((MIMB,volume 887))

Abstract

The use of deoxyoligonucleotide microarrays facilitates rapid expression profiling of gene expression using samples of about 1 μg of total RNA. Here are described practical aspects of the procedures involved, including essential reagents. Analysis of results is discussed from a practical, experimental, point of view together with software required to carry out the required statistical analysis to isolate populations of differentially expressed genes.

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References

  1. Osmundsen, H., Landin, M. A., From, S. H., Kolltveit, K. M., and Risnes, S. (2007) Changes in gene-expression during development of the murine molar tooth germ, Arch Oral Biol 52, 803–813.

    Article  PubMed  CAS  Google Scholar 

  2. Sehic, A., Khuu, C., Risnes, S., and Osmundsen, H. (2009) Differential gene expression profiling of the molar tooth germ in peroxisome proliferator-activated receptor-alpha (PPAR-alpha) knockout mouse and in wild-type mouse: molar tooth phenotype of PPAR-alpha knockout mouse, Eur J Oral Sci 117, 93–104.

    Article  PubMed  CAS  Google Scholar 

  3. Sehic, A., Risnes, S., Khan, Q. E., Khuu, C., and Osmundsen, H. (2010) Gene expression and dental enamel structure in developing mouse incisor, Eur J Oral Sci 118, 118–130.

    Article  PubMed  CAS  Google Scholar 

  4. Schena, M., Shalon, D., Davis, R. W., and Brown, P. O. (1995) Quantitative monitoring of gene expression patterns with a complementary DNA microarray, Science 270, 467–470.

    Article  PubMed  CAS  Google Scholar 

  5. Watson, A., Mazumder, A., Stewart, M., and Balasubramanian, S. (1998) Technology for microarray analysis of gene expression, Curr Opin Biotechnol 9, 609–614.

    Article  PubMed  CAS  Google Scholar 

  6. Elvidge, G. (2006) Microarray expression technology: from start to finish, Pharmacogenomics 7, 123–134.

    Article  PubMed  CAS  Google Scholar 

  7. Mocellin, S., and Rossi, C. R. (2007) Principles of gene microarray data analysis, Adv Exp Med Biol 593, 19–30.

    Article  PubMed  Google Scholar 

  8. Roberts, P. C. (2008) Gene expression microarray data analysis demystified, Biotechnol Annu Rev 14, 29–61.

    Article  PubMed  CAS  Google Scholar 

  9. Wolf, B., Lesnaw, J. A., and Reichmann, M. E. (1970) A mechanism of the irreversible ­inactivation of bovine pancreatic ribonuclease by diethylpyrocarbonate. A general reaction of diethylpyrocarbonate. A general reaction of diethylpyrocarbonate with proteins, Eur J Biochem 13, 519–525.

    Article  PubMed  CAS  Google Scholar 

  10. Liu, H., Bebu, I., and Li, X. (2010) Microarray probes and probe sets, Front Biosci (Elite Ed) 2, 325–338.

    Article  Google Scholar 

  11. Yang, I. V. (2006) Use of external controls in microarray experiments, Methods Enzymol 411, 50–63.

    Article  PubMed  CAS  Google Scholar 

  12. Yang, Y. H., Dudoit, S., Luu, P., Lin, D. M., Peng, V., Ngai, J., and Speed, T. P. (2002) Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation, Nucleic Acids Res 30, e15.

    Article  PubMed  Google Scholar 

  13. Churchill, G. A. (2004) Using ANOVA to analyze microarray data, Biotechniques 37, 173–175, 177.

    Google Scholar 

  14. Stekel, D. (2003) Microarray Bioinformatics, Cambridge University Press, Cambridge.

    Book  Google Scholar 

  15. Benjamini, Y., Hochberg Y. (1995) Controlling the false discovery rate; a practical and powerful apporach to multiple testing., J. R. Stat Soc B 57, 589–300.

    Google Scholar 

  16. Pawitan, Y., Michiels, S., Koscielny, S., Gusnanto, A., and Ploner, A. (2005) False discovery rate, sensitivity and sample size for microarray studies, Bioinformatics 21, 3017–3024.

    Article  PubMed  CAS  Google Scholar 

  17. Pfaffl, M. W., Horgan, G. W., and Dempfle, L. (2002) Relative expression software tool (REST) for group-wise comparison and statistical analysis of relative expression results in real-time PCR, Nucleic Acids Res 30, e36.

    Article  PubMed  Google Scholar 

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Acknowledgements

The expert technical assistance of Mrs. Toril Woldene, Mrs. Bente Gehrken, and Mr. Benedicto Geronimo are gratefully acknowledged.

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Authors and Affiliations

  1. Department of Oral Biology, University of Oslo, Oslo, Norway

    Harald Osmundsen, Anne-Marthe Jevnaker & Maria A. Landin

Authors
  1. Harald Osmundsen
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  2. Anne-Marthe Jevnaker
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  3. Maria A. Landin
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Corresponding author

Correspondence to Harald Osmundsen .

Editor information

Editors and Affiliations

  1. College of Pharmacy, Dept. of Pharmaceutical Sciences, Oregon State University, SW Jefferson Street 1600, Corvallis, 97333, Oregon, USA

    Chrissa Kioussi

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Osmundsen, H., Jevnaker, AM., Landin, M.A. (2012). Deoxyoligonucleotide Microarrays for Gene Expression Profiling in Murine Tooth Germs. In: Kioussi, C. (eds) Odontogenesis. Methods in Molecular Biology, vol 887. Humana Press. https://doi.org/10.1007/978-1-61779-860-3_10

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  • DOI: https://doi.org/10.1007/978-1-61779-860-3_10

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  • Publisher Name: Humana Press

  • Print ISBN: 978-1-61779-859-7

  • Online ISBN: 978-1-61779-860-3

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