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ASIAN: a web server for inferring a regulatory network framework from gene expression profiles.

Sachiyo Aburatani1, Kousuke Goto, Shigeru Saito

  • 1Laboratory of Biostatistics, Institute of Medical Science, University of Tokyo, 4-6-1 Shirokane-dai, Minato-ku, Tokyo 108-8639, Japan.

Nucleic Acids Research
|June 28, 2005
PubMed
Summary

This study introduces ASIAN, a web server for inferring gene regulatory networks from gene expression profiles. It uses graphical Gaussian modeling and hierarchical clustering for efficient network analysis.

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Area of Science:

  • Bioinformatics
  • Computational Biology
  • Systems Biology

Background:

  • Gene function identification typically involves clustering gene expression profiles and subsequent analyses.
  • Inferring gene regulatory networks from expression data is a complex computational challenge.

Purpose of the Study:

  • To present the ASIAN (Automatic System for Inferring A Network) web server for constructing gene regulatory network frameworks.
  • To provide a user-friendly platform for analyzing large-scale gene expression datasets.

Main Methods:

  • Utilizes graphical Gaussian modeling (GGM) combined with hierarchical clustering.
  • GGM involves calculating the inverse of the correlation coefficient matrix for network inference.
  • The server processes user-inputted expression profiles.

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Main Results:

  • Outputs gene dendrograms from hierarchical clustering and estimated cluster numbers.
  • Generates graphical representations of regulatory networks between clusters using GGM.
  • Enables analysis of diverse datasets within reasonable computational time.

Conclusions:

  • The ASIAN web server offers a foundational approach for inferring gene regulatory relationships.
  • Hierarchical clustering serves as a crucial initial step for gene function identification within the network inference process.