Finding Clusters of Positive and Negative Coregulated Genes in Gene Expression Data

— In this paper, we propose a system for finding partial positive and negative coregulated gene clusters in microarray data. Genes are clustered together if they show the same pattern of changing tendencies in a user definied number of condition pairs. It is assumed that genes which show similar expression patterns under a number of conditions are under the control of the same transcription factor and are related to a similar function in the cell. Taking positive and negative coregulation of genes into account, we find two types of information:(1) clusters of genes showing the same changing tendency and (2) relationships between two such clusters whose respective members show opposite changing tendency. Because genes may be coregulated by different transcription factors under different environmental conditions, our algorithm allows the same gene to fall into different clusters. Overlapping gene clusters are allowed because coregulation normally takes place in only a fraction of th...

• Type: Conference
• Year: 2007
• Where: BIBE
• Authors: Kerstin Koch, Stefan Schönauer, Ivy Jansen, Jan Van den Bussche, Tomasz Burzykowski
• Keywords: BIBE 2007, Bioinformatics, Condition Pairs, Gene Clusters, Gene Expression