DOI: 10.18129/B9.bioc.GeneNetworkBuilder    

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

Bioconductor version: Release (3.6)

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 , Haibo Liu, Heidi A Tissenbaum and Lihua Julie Zhu

Maintainer: Jianhong Ou <jianhong.ou at>

Citation (from within R, enter citation("GeneNetworkBuilder")):


To install this package, start R and enter:

## try http:// if https:// URLs are not supported


HTML R Script GeneNetworkBuilder Vignette
HTML R Script Working with BioGRID, STRING
PDF   Reference Manual
Text   NEWS


biocViews GraphAndNetwork, Microarray, Sequencing, Software
Version 1.20.0
In Bioconductor since BioC 2.11 (R-2.15) (5.5 years)
License GPL (>= 2)
Depends R (>= 2.15.1), Rcpp (>= 0.9.13)
Imports plyr, graph, htmlwidgets, Rgraphviz, rjson, XML
LinkingTo Rcpp
Suggests RUnit, BiocGenerics, RBGL, knitr, simpIntLists, shiny, STRINGdb
Depends On Me
Imports Me
Suggests Me
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Source Package GeneNetworkBuilder_1.20.0.tar.gz
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Mac OS X 10.11 (El Capitan) GeneNetworkBuilder_1.20.0.tgz
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