birta

Bayesian Inference of Regulation of Transcriptional Activity

Bioconductor version: Release (2.12)

Expression levels of mRNA molecules are regulated by different processes, comprising inhibition or activation by transcription factors and post-transcriptional degradation by microRNAs. birta (Bayesian Inference of Regulation of Transcriptional Activity) uses the regulatory networks of TFs and miRNAs together with mRNA and miRNA expression data to predict switches in regulatory activity between two conditions. A Bayesian network is used to model the regulatory structure and Markov-Chain-Monte-Carlo is applied to sample the activity states.

Author: Benedikt Zacher, Khalid Abnaof, Stephan Gade, Erfan Younesi, Achim Tresch, Holger Froehlich

Maintainer: Benedikt Zacher <zacher at lmb.uni-muenchen.de>, Holger Froehlich <frohlich at bit.uni-bonn.de>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("birta")

To cite this package in a publication, start R and enter:

    citation("birta")

Documentation

PDF R Script Bayesian Inference of Regulation of Transcriptional Activity
PDF   Reference Manual
Text   NEWS

Details

biocViews Bioinformatics, GeneExpression, GraphsAndNetworks, Microarray, Sequencing, Software, Transcription
Version 1.4.0
In Bioconductor since BioC 2.10 (R-2.15)
License GPL (>= 2)
Depends limma, MASS, R(>= 2.10), Biobase, methods
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Package Downloads

Package Source birta_1.4.0.tar.gz
Windows Binary birta_1.4.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) birta_1.4.0.tgz
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