Chapter 15. Bioinformatics Tools to Discover Co-Expressed Genes in Plants

  1. Prof. Dr. Günter Kahl5,6,
  2. Prof. Dr. Khalid Meksem7
  1. Yoshiyuki Ogata1,
  2. Nozomu Sakurai2,
  3. Nicholas J. Provart3,
  4. Dirk Steinhauser4,
  5. Leonard Krall4

Published Online: 11 JUN 2008

DOI: 10.1002/9783527622542.ch15

Book Title

The Handbook of Plant Functional Genomics: Concepts and Protocols

The Handbook of Plant Functional Genomics: Concepts and Protocols

Additional Information

How to Cite

Ogata, Y., Sakurai, N., Provart, N. J., Steinhauser, D. and Krall, L. (2008) Bioinformatics Tools to Discover Co-Expressed Genes in Plants, in The Handbook of Plant Functional Genomics: Concepts and Protocols (eds G. Kahl and K. Meksem), Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim, Germany. doi: 10.1002/9783527622542.ch15

Editor Information

  1. 5

    Mohrmühlgasse 3, 63500 Seligenstadt, Germany

  2. 6

    GenXPro GmbH, Frankfurt Innovation Center Biotechnology (FIZ), Altenhöferallee 3, 60438 Frankfurt am Main, Germany

  3. 7

    Department of Plant, Soil and Agricultural Systems, Southern Illinois University, Carbondale, IL 62901-4415, USA

Author Information

  1. 1

    Kazusa DNA Research Institute, The NEDO Team of Applied Plant Genomics, 2-6-7 Kazusa-Kamatari, Kisarazu, Chiba 292-0818, Japan

  2. 2

    Kazusa DNA Research Institute, 2-6-7 Kazusa-Kamatari, Kisarazu, Chiba 292-0818, Japan

  3. 3

    University Toronto, Plant Bioinformatics, Department of Cell and Systems Biology, 25 Willcocks St., Toronto, ON, M5S 3B2, Canada

  4. 4

    Max Planck Institute of Molecular Plant Physiology, Research Group Genes and Small Molecules, Am Muehlenberg 1, 14476 Potsdam-Golm, Germany

Publication History

  1. Published Online: 11 JUN 2008
  2. Published Print: 10 JUN 2008

ISBN Information

Print ISBN: 9783527318858

Online ISBN: 9783527622542

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Keywords:

  • KaPPA View2;
  • single gene query (sGQ);
  • transcript profile;
  • cis-element;
  • Gene Ontological (GO) categories;
  • co-expression analysis

Summary

This chapter contains sections titled:

  • Introduction

  • The Expression Angler Tool of the Botany Array Resource

  • The CSB.DB Tool

  • The KaPPA-View 2: Co-Expression Analysis on the Plant Metabolic Pathway Maps

  • The KAGIANA Tool for Co-Expression Network Analysis of Arabidopsis Genes

  • References

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