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An introduction to BioArray Software Environment.

Carl Troein1, Johan Vallon-Christersson, Lao H Saal

  • 1Computational Biology and Biological Physics, Department of Theoretical Physics, Lund University, Lund, Sweden.

Methods in Enzymology
|August 31, 2006
PubMed
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BioArray Software Environment (BASE) is a web-based tool for managing microarray data from sample tracking to experiment analysis. Its open-source nature and plug-in architecture facilitate custom analysis and local software modifications.

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Genomics

Background:

  • Microarray data requires robust management and analysis tools.
  • Existing solutions may lack flexibility or be proprietary.

Purpose of the Study:

  • To introduce the BioArray Software Environment (BASE) as a comprehensive solution.
  • To detail BASE's features for storing, searching, and analyzing microarray data.
  • To guide users on BASE installation and advanced usage.

Main Methods:

  • BASE is a web-based software package.
  • It supports a workflow from sample management to data visualization and analysis.
  • The system is extensible through analysis plug-ins.

Main Results:

Related Experiment Videos

  • BASE provides a centralized platform for local microarray data.
  • Its open-source (GNU GPL) license encourages modifications and third-party tools.
  • The software supports a comprehensive experimental workflow.

Conclusions:

  • BASE offers a flexible and extensible environment for microarray data management and analysis.
  • It is suitable for researchers needing to store, search, and analyze their own experimental data.
  • The introduction serves as a guide for users and administrators of BASE version 1.2.17b.