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Integrated data analysis for genome-wide research

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Plant Systems Biology

Part of the book series: Experientia Supplementum ((EXS,volume 97))

Abstract

Integrated data analysis is introduced as the intermediate level of a systems biology approach to analyse different ‘omicsrs datasets, i.e., genome-wide measurements of transcripts, protein levels or protein—protein interactions, and metabolite levels aiming at generating a coherent understanding of biological function. In this chapter we focus on different methods of correlation analyses ranging from simple pairwise correlation to kernel canonical correlation which were recently applied in molecular biology. Several examples are presented to illustrate their application. The input data for this analysis frequently originate from different experimental platforms. Therefore, preprocessing steps such as data normalisation and missing value estimation are inherent to this approach. The corresponding procedures, potential pitfalls and biases, and available software solutions are reviewed. The multiplicity of observations obtained in omics-profiling experiments necessitates the application of multiple testing correction techniques.

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Author information

Authors and Affiliations

  1. Institute for Biology and Biochemistry, University Potsdam, c/o MPI-MP, Am Mühlenberg 1, D-14476, Potsdam-Golm, Germany

    Matthias Steinfath, Dirk Repsilber & Joachim Selbig

  2. Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, D-14476, Potsdam-Golm, Germany

    Matthias Scholz, Dirk Walther & Joachim Selbig

Authors
  1. Matthias Steinfath
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  2. Dirk Repsilber
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  3. Matthias Scholz
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  4. Dirk Walther
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  5. Joachim Selbig
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Editor information

Editors and Affiliations

  1. Institute of Plant Sciences, Swiss Federal Institute of Technology, ETH Zentrum, LFW E, 8092, Zürich, Switzerland

    Sacha Baginsky

  2. MPI for Molecular Plant Physiology, Am Mühlenberg 1, 14476, Golm, Germany

    Alisdair R. Fernie

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© 2007 Birkhäuser Verlag/Switzerland

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Steinfath, M., Repsilber, D., Scholz, M., Walther, D., Selbig, J. (2007). Integrated data analysis for genome-wide research. In: Baginsky, S., Fernie, A.R. (eds) Plant Systems Biology. Experientia Supplementum, vol 97. Birkhäuser Basel. https://doi.org/10.1007/978-3-7643-7439-6_13

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