R/ASSIGN-package.R

In wevanjohnson/ASSIGN: Adaptive Signature Selection and InteGratioN (ASSIGN)

#' Pathway signature gene sets
#' 
#' Signature genes for 5 oncogenic pathways.
#' 
#' 
#' @name geneList1
#' @docType data
#' @format List with 5 components representing each pathway. 200 signature
#' genes are selected for each pathway.
#' @source Bild et al. (2006) Oncogenic pathway signatures in human cancers as
#' a guide to targeted therapies. Nature, 439, 353-357.
#' @keywords datasets
NULL

#' Gene expression profiling from cancer patients (test dataset)
#' 
#' Gene expression datasets for 111 lung cancer patient samples, including 53
#' cases of lung adenocarcinoma and 58 cases of lung squamous carcinoma.
#' 
#' 
#' @name testData1
#' @docType data
#' @format Data frame with 1000 genes/probes (rows) and 111 samples (columns)
#' @source Bild et al. (2006) Oncogenic pathway signatures in human cancers as
#' a guide to targeted therapies. Nature, 439, 353-357.
#' @keywords datasets
NULL

#' Gene expression profiling from cell line preturbation experiments (training
#' dataset)
#' 
#' Gene expression datasets for 5 oncogenic pathway preturbation experiments,
#' including B-Catenin, E2F3, MYC, RAS, and SRC pathways.
#' 
#' 
#' @name trainingData1
#' @docType data
#' @format Data frame with 1000 genes/probes (rows) and 55 samples (columns)
#' @source Bild et al. (2006) Oncogenic pathway signatures in human cancers as
#' a guide to targeted therapies. Nature, 439, 353-357.
#' @keywords datasets
NULL