DriverNet: Drivernet: uncovering somatic driver mutations modulating transcriptional networks in cancer

DriverNet is a package to predict functional important driver genes in cancer by integrating genome data (mutation and copy number variation data) and transcriptome data (gene expression data). The different kinds of data are combined by an influence graph, which is a gene-gene interaction network deduced from pathway data. A greedy algorithm is used to find the possible driver genes, which may mutated in a larger number of patients and these mutations will push the gene expression values of the connected genes to some extreme values.

AuthorAli Bashashati, Reza Haffari, Jiarui Ding, Gavin Ha, Kenneth Liu, Jamie Rosner and Sohrab Shah
Date of publicationNone
MaintainerJiarui Ding <jiaruid@cs.ubc.ca>
LicenseGPL-3
Version1.14.0

View on Bioconductor

Files in this package

DriverNet/DESCRIPTION
DriverNet/NAMESPACE
DriverNet/R
DriverNet/R/AllClasses.R DriverNet/R/AllGenerics.R DriverNet/R/ComputeDrivers.R DriverNet/R/DriverSelection.R DriverNet/R/Graph.R DriverNet/R/Preprocessing.R DriverNet/R/ResultSummary.R DriverNet/R/SignificanceTest.R DriverNet/R/getPatientOutlierMatrix.R DriverNet/R/methods-DriverNetResult.R
DriverNet/build
DriverNet/build/vignette.rds
DriverNet/data
DriverNet/data/datalist
DriverNet/data/sampleDriversList.rda
DriverNet/data/sampleGeneNames.rda
DriverNet/data/sampleInfluenceGraph.rda
DriverNet/data/samplePatientExpressionMatrix.rda
DriverNet/data/samplePatientMutationMatrix.rda
DriverNet/data/samplePatientOutlierMatrix.rda
DriverNet/data/sampleRandomDriversResult.rda
DriverNet/inst
DriverNet/inst/doc
DriverNet/inst/doc/DriverNet-Overview.R
DriverNet/inst/doc/DriverNet-Overview.Rnw
DriverNet/inst/doc/DriverNet-Overview.pdf
DriverNet/man
DriverNet/man/DriverNet-package.Rd DriverNet/man/DriverNetResult-class.Rd DriverNet/man/actualEvents.Rd DriverNet/man/computeDrivers.Rd DriverNet/man/computeRandomizedResult.Rd DriverNet/man/drivers.Rd DriverNet/man/getPatientOutlierMatrix.Rd DriverNet/man/preprocessMatrices.Rd DriverNet/man/resultSummary.Rd DriverNet/man/sampleDriversList.Rd DriverNet/man/sampleGeneNames.Rd DriverNet/man/sampleInfluenceGraph.Rd DriverNet/man/samplePatientExpressionMatrix.Rd DriverNet/man/samplePatientMutationMatrix.Rd DriverNet/man/samplePatientOutlierMatrix.Rd DriverNet/man/sampleRandomDriversResult.Rd DriverNet/man/totalEvents.Rd
DriverNet/vignettes
DriverNet/vignettes/DriverNet-Overview.Rnw
DriverNet/vignettes/drivernet.bib

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