Abstract
The use of 2D electrophoresis for comparative proteomics allows the revelation of variations of protein relative amounts according to various physiological or genetic criteria. The statistical significance of these results is related to different factors, from the experimental design to the statistical tests. In this chapter we describe different parameters that should be taken into account in the experimental design and during image acquisition, and we present different programs for the normalization of quantitative data, the selection of reproducible spots according to user-defined criteria, and the selection of spots showing qualitative and significant quantitative variations.
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References
Burstin J., Zivy, M., de Vienne, D., and Damerval, C. (1993) Analysis of scaling methods to minimize the experimental variations in two-dimensional electrophoresis quantitative data. Application to the comparison of maize inbred lines. Electrophoresis 14, 1067–1073.
David J. L., Zivy, M., Cardin, M. L., and Brabant, P. (1997) Protein evolution in dynamically managed populations of wheat: adaptative responses to macro-environmental conditions. Theor. Appl. Genet. 95, 932–941.
Benjamini, Y. and Hochberg, Y. (1995) Controlling the false discovery rate: a practical and powerful approach to multiple testing. J. R. Statist. Soc. B, 57, 289–300.
Marquès, K., Sarazin, B., Chané-Favre, L., Zivy, M., and Thiellement, H. (2001) Comparative proteomics to establish genetic relationships in the Brassicaceae family. Proteomics 1, 1457–1462.
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© 2007 Humana Press Inc., Totowa, NJ
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Zivy, M. (2007). Quantitative Analysis of 2D Gels. In: Thiellement, H., Zivy, M., Damerval, C., Méchin, V. (eds) Plant Proteomics. Methods in Molecular Biology, vol 355. Humana Press. https://doi.org/10.1385/1-59745-227-0:175
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DOI: https://doi.org/10.1385/1-59745-227-0:175
Publisher Name: Humana Press
Print ISBN: 978-1-58829-635-1
Online ISBN: 978-1-59745-227-4
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