Roleswitch: Infer miRNA-mRNA interactions using paired expression data from a single sample

Infer Probabilities of MiRNA-mRNA Interaction Signature (ProMISe) using paired expression data from a single sample. Roleswitch operates in two phases by inferring the probability of mRNA (miRNA) being the targets ("targets") of miRNA (mRNA), taking into account the expression of all of the mRNAs (miRNAs) due to their potential competition for the same miRNA (mRNA). Due to dynamic miRNA repression in the cell, Roleswitch assumes that the total transcribed mRNA levels are higher than the observed (equilibrium) mRNA levels and iteratively updates the total transcription of each mRNA targets based on the above inference. NB: in the paper, we used ProMISe as both the model name and inferred score name.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("Roleswitch")
AuthorYue Li
Bioconductor views miRNA
Date of publicationNone
MaintainerYue Li <yueli@cs.toronto.edu>
LicenseGPL-2
Version1.12.0
http://www.cs.utoronto.ca/~yueli/roleswitch.html

View on Bioconductor

Files

DESCRIPTION
NAMESPACE
R
R/diagnosticPlot.R R/getSeedMatrix.R R/roleswitch.R
build
build/vignette.rds
data
data/datalist
data/tcga_gbm_testdata.RData
inst
inst/CITATION
inst/NEWS
inst/doc
inst/doc/Roleswitch.R
inst/doc/Roleswitch.Rnw
inst/doc/Roleswitch.pdf
man
man/Roleswitch-package.Rd man/diagnosticPlot.Rd man/getSeedMatrix.Rd man/roleswitch.Rd man/tcga_gbm_testdata.Rd
vignettes
vignettes/Roleswitch.Rnw
vignettes/Roleswitch.bib

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