DOI: 10.18129/B9.bioc.birte    

Bayesian Inference of Regulatory Influence on Expression (biRte)

Bioconductor version: Release (3.6)

Expression levels of mRNA molecules are regulated by different processes, comprising inhibition or activation by transcription factors and post-transcriptional degradation by microRNAs. biRte uses regulatory networks of TFs, miRNAs and possibly other factors, together with mRNA, miRNA and other available expression data to predict the relative influence of a regulator on the expression of its target genes. Inference is done in a Bayesian modeling framework using Markov-Chain-Monte-Carlo. A special feature is the possibility for follow-up network reverse engineering between active regulators.

Author: Holger Froehlich, contributions by Benedikt Zacher

Maintainer: Holger Froehlich <frohlich at>

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PDF R Script Bayesian Inference of Regulation of Transcriptional Activity
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biocViews Bayesian, GeneExpression, Microarray, Network, NetworkInference, Regression, Sequencing, Software, Transcription
Version 1.14.0
In Bioconductor since BioC 3.1 (R-3.2) (3 years)
License GPL (>= 2)
Depends R (>= 3.0.0), RcppArmadillo (>=, Rcpp
Imports MASS, limma(>= 3.22.0), glmnet, Biobase, nem, graphics, stats, utils
LinkingTo RcppArmadillo, Rcpp
Suggests knitr
SystemRequirements BLAS, LAPACK
Enhances Rgraphviz
Depends On Me
Imports Me
Suggests Me
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