Journal Article

AtCAST, a Tool for Exploring Gene Expression Similarities among DNA Microarray Experiments Using Networks

Eriko Sasaki, Chitose Takahashi, Tadao Asami and Yukihisa Shimada

in Plant and Cell Physiology

Published on behalf of Japanese Society of Plant Physiologists

Volume 52, issue 1, pages 169-180
Published in print January 2011 | ISSN: 0032-0781
Published online November 2010 | e-ISSN: 1471-9053 | DOI: http://dx.doi.org/10.1093/pcp/pcq185
AtCAST, a Tool for Exploring Gene Expression Similarities among DNA Microarray Experiments Using Networks

More Like This

Show all results sharing these subjects:

  • Biochemistry
  • Molecular and Cell Biology
  • Plant Sciences and Forestry

GO

Show Summary Details

Preview

The comparison of gene expression profiles among DNA microarray experiments enables the identification of unknown relationships among experiments to uncover the underlying biological relationships. Despite the ongoing accumulation of data in public databases, detecting biological correlations among gene expression profiles from multiple laboratories on a large scale remains difficult. Here, we applied a module (sets of genes working in the same biological action)-based correlation analysis in combination with a network analysis to Arabidopsis data and developed a ‘module-based correlation network’ (MCN) which represents relationships among DNA microarray experiments on a large scale. We developed a Web-based data analysis tool, ‘AtCAST’ (Arabidopsis thaliana: DNA Microarray Correlation Analysis Tool), which enables browsing of an MCN or mining of users’ microarray data by mapping the data into an MCN. AtCAST can help researchers to find novel connections among DNA microarray experiments, which in turn will help to build new hypotheses to uncover physiological mechanisms or gene functions in Arabidopsis.

Keywords: Arabidopsis thaliana; Data mining; DNA microarray; Experimental conditions; Gene expression profile; Plant hormone

Journal Article.  6175 words.  Illustrated.

Subjects: Biochemistry ; Molecular and Cell Biology ; Plant Sciences and Forestry

Full text: subscription required

How to subscribe Recommend to my Librarian

Users without a subscription are not able to see the full content. Please, subscribe or login to access all content.