Using GeneReg to construct time delay gene regulatory networks.

ABSTRACT:

Background

Understanding gene expression and regulation is essential for understanding biological mechanisms. Because gene expression profiling has been widely used in basic biological research, especially in transcription regulation studies, we have developed GeneReg, an easy-to-use R package, to construct gene regulatory networks from time course gene expression profiling data; More importantly, this package can provide information about time delays between expression change in a regulator and that of its target genes.

Findings

The R package GeneReg is based on time delay linear regression, which can generate a model of the expression levels of regulators at a given time point against the expression levels of their target genes at a later time point. There are two paramete

SUBMITTER: Huang T 

PROVIDER: S-EPMC2892504 | biostudies-literature | 2010 May

REPOSITORIES: biostudies-literature