Build Regulatory Network from ChIP-chip/ChIP-seq and Expression Data

Bioconductor version: Release (2.11)

Appliation for discovering direct or indirect targets of transcription factors using ChIP-chip or ChIP-seq, and microarray or RNA-seq gene expression data. Inputting a list of genes of potential targets of one TF from ChIP-chip or ChIP-seq, and the gene expression results, GeneNetworkBuilder generates a regulatory network of the TF.

Author: Jianhong Ou and Lihua Julie Zhu

Maintainer: Jianhong Ou <jianhong.ou at>

To install this package, start R and enter:


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PDF R Script GeneNetworkBuilder Vignette
PDF   Reference Manual
Text   NEWS


biocViews GraphsAndNetworks, HighThroughputSequencing, Microarray, Software
Version 1.0.1
In Bioconductor since BioC 2.11 (R-2.15)
License GPL (>= 2)
Depends R (>= 2.15.1), Rcpp (>= 0.9.13), graph
Imports plyr, graph
Suggests RUnit, BiocGenerics, Rgraphviz, XML, RCytoscape
System Requirements
Depends On Me
Imports Me
Suggests Me

Package Downloads

Package Source GeneNetworkBuilder_1.0.1.tar.gz
Windows Binary (32- & 64-bit)
MacOS 10.5 (Leopard) GeneNetworkBuilder_1.0.1.tgz
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