xSyn

BACKGROUND: Constructing gene co-expression networks from cancer expression data
is important for investigating the genetic mechanisms underlying cancer. However,
correlation coefficients or linear regression models are not able to model
sophisticated relationships among gene expression profiles. Here, we address the
3-way interaction that 2 genes' expression levels are clustered in different
space locations under the control of a third gene's expression levels. RESULTS:
We present xSyn, a software tool for identifying such 3-way interactions from
cancer gene expression data based on an optimization procedure involving the
usage of UPGMA (Unweighted Pair Group Method with Arithmetic Mean) and synergy.
The effectiveness is demonstrated by application to 2 real gene expression data
sets. CONCLUSIONS: xSyn is a useful tool for decoding the complex relationships
among gene expression profiles. xSyn is available at
http://www.bdxconsult.com/xSyn.html.

xSyn: A Software Tool for Identifying Sophisticated 3-Way Interactions From Cancer Expression Data.

xSyn is a tool to analyze complicated relationsships among gene expression profiles. xSyn can identify three-way interactions where two expression levels cluster in different spatial locations under the control of a third gene. The xSyn algorithm uses an optimization procedure based on the Unweighted Pair Group Method with Arithmetic Mean (UPGMA ) and corresponding synergies.

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