Metabolomics pp 87-104 | Cite as

Visualization and Analysis of Molecular Data

  • Matthias Scholz
  • Joachim Selbig
Part of the Methods in Molecular Biology™ book series (MIMB, volume 358)

Abstract

This chapter provides an overview of visualization and analysis techniques applied to large-scale datasets from genomics, metabolomics, and proteomics. The aim is to reduce the number of variables (genes, metabolites, or proteins) by extracting a small set of new relevant variables, usually termed components. The advantages and disadvantages of the classical principal component analysis (PCA) are discussed and a link is given to the closely related singular value decomposition and multidimensional scaling. Special emphasis is given to the recent trend toward the use of independent component analysis, which aims to extract statistically independent components and, therefore, provides usually more meaningful components than PCA. We also discuss normalization techniques and their influence on the result of different analytical techniques.

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Copyright information

© Humana Press Inc. 2007

Authors and Affiliations

  • Matthias Scholz
    • 1
  • Joachim Selbig
    • 1
  1. 1.Institute of Biochemistry and BiologyUniversity of PotsdamPotsdamGermany

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