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Journal of Biomedicine and Biotechnology
Volume 2005 (2005), Issue 2, Pages 215-225
http://dx.doi.org/10.1155/JBB.2005.215
Review article

Finding Groups in Gene Expression Data

Department of Mathematics, Faculty of Physical Sciences, Imperial College, London SW7 2AZ, UK

Received 11 June 2004; Revised 24 August 2004; Accepted 24 August 2004

Copyright © 2005 This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Abstract

The vast potential of the genomic insight offered by microarray technologies has led to their widespread use since they were introduced a decade ago. Application areas include gene function discovery, disease diagnosis, and inferring regulatory networks. Microarray experiments enable large-scale, high-throughput investigations of gene activity and have thus provided the data analyst with a distinctive, high-dimensional field of study. Many questions in this field relate to finding subgroups of data profiles which are very similar. A popular type of exploratory tool for finding subgroups is cluster analysis, and many different flavors of algorithms have been used and indeed tailored for microarray data. Cluster analysis, however, implies a partitioning of the entire data set, and this does not always match the objective. Sometimes pattern discovery or bump hunting tools are more appropriate. This paper reviews these various tools for finding interesting subgroups.