SRGnet: SRGnet An R package for studying synergistic response genes from transcriptomics data

We developed SRMnet to analyze synergistic regulatory mechanisms in transcriptome profiles that act to enhance the overall cell response to combination of mutations, drugs or environmental exposure. This package can be used to identify regulatory modules downstream of synergistic response genes, prioritize synergistic regulatory genes that may be potential intervention targets, and contextualize gene perturbation experiments.

Author
Isar Nassiri [aut, cre], Matthew McCall [aut, cre]
Date of publication
None
Maintainer
Isar Nassiri <isar_nassiri@urmc.rochester.edu>
License
GPL-2
Version
1.0.0

View on Bioconductor

Man pages

Differentially_expressed_genes
List of differentially expressed genes in a murine colon...
PLCRG
List of synergistic response genes in a murine colon cancer...
SRG
Identification of differentially expressed and synergistic...
SRGnet
Gene regulatory network inference based on predifined list of...
Transcriptomics
Murine colon cancer transcriptomics profile under single and...

Files in this package

SRGnet/DESCRIPTION
SRGnet/NAMESPACE
SRGnet/R
SRGnet/R/Differentially_expressed_genes.R
SRGnet/R/PLCRG.R
SRGnet/R/SRGnet_function.R
SRGnet/R/Transcriptomics.R
SRGnet/build
SRGnet/build/vignette.rds
SRGnet/data
SRGnet/data/Differentially_expressed_genes.rda
SRGnet/data/PLCRG.rda
SRGnet/data/Transcriptomics.rda
SRGnet/inst
SRGnet/inst/doc
SRGnet/inst/doc/vignette.Rmd
SRGnet/inst/doc/vignette.html
SRGnet/man
SRGnet/man/Differentially_expressed_genes.Rd
SRGnet/man/PLCRG.Rd
SRGnet/man/SRG.Rd
SRGnet/man/SRGnet.Rd
SRGnet/man/Transcriptomics.Rd
SRGnet/vignettes
SRGnet/vignettes/vignette.Rmd