Summary
In this chapter, we provide a structured approach to the statistical analysis of toxicogenomic data, from the assessment of data quality to data exploration, gene and pathway level analysis, and finally predictive model building. This type of analysis approach can yield toxicogenomic models that provide validated and reliable information about the toxicity of compounds. In addition, we provide study design recommendations for genomic studies in toxicology, covering areas of power, sample size, the need for replicates, and the issue of sample pooling.
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References
Gentleman, R., Carey, V., Bates, D., Bolstad, B., Dettling, M., Dudait, S. et. al. (2004) Bioconductor: open software development for computational biology and bioinformatics. Genome Biol. 5, R80.
Joliffe, I.T. (2002) Principal Component Analysis. Springer, New York.
Coberley, C., Elashoff, M., and Mertz, L. (2004) Match/X, a gene expression pattern recognition algorithm used to identify genes which may be related to CDC2 function and cell cycle regulation. Cell Cycle 3, 804–810.
Hastie, T., Tibshirani, R., and Friedman, J. (2003) The Elements of Statistical Learning. Springer, New York
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© 2008 Humana Press, a part of Springer Science+Business Media, LLC
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Elashoff, M. (2008). Role of Statistics in Toxicogenomics. In: Mendrick, D.L., Mattes, W.B. (eds) Essential Concepts in Toxicogenomics. Methods in Molecular Biology™, vol 460. Humana Press. https://doi.org/10.1007/978-1-60327-048-9_4
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DOI: https://doi.org/10.1007/978-1-60327-048-9_4
Publisher Name: Humana Press
Print ISBN: 978-1-58829-638-2
Online ISBN: 978-1-60327-048-9
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