Email updates

Keep up to date with the latest news and content from BMC Bioinformatics and BioMed Central.

Open Access Software

An interactive tool for visualization of relationships between gene expression profiles

Peter Ruzanov* and Steven JM Jones

Author Affiliations

Genome Sciences Centre, BC Cancer Research Centre, Ste 100-570 West 7th Ave Vancouver, BC V5Z 4S6, Canada

For all author emails, please log on.

BMC Bioinformatics 2006, 7:193  doi:10.1186/1471-2105-7-193

Published: 6 April 2006



Application of phenetic methods to gene expression analysis proved to be a successful approach. Visualizing the results in a 3-dimentional space may further enhance these techniques.


We designed and built TreeBuilder3D, an interactive viewer for visualizing the hierarchical relationships between expression profiles such as SAGE libraries or microarrays. The program allows loading expression data as plain text files and visualizing the relative differences of the analyzed datasets in 3-dimensional space using various distance metrics.


TreeBuilder3D provides a simple interface and has a small size. Written in Java, TreeBuilder3D is a platform-independent, open source application, which may be useful in analysis of large-scale gene expression data.