R/PBT_gmt.R

In dearseq: Differential Expression Analysis for RNA-seq data through a robust variance component test

#' PBT gene sets related to kidney transplant
#'
#'9 Pathogenesis Based Transcripts (PBT) gene sets specifically related to
#'kidney transplant
#'
#'@name PBT_gmt
#'@rdname PBT_gmt
#'@aliases PBT_gmt PBT
#'
#'@usage data(PBT_gmt)
#'
#'@references Halloran PF, De Freitas DG, Einecke G, \emph{et al.}, The
#'molecular phenotype of kidney transplants: Personal viewpoint,
#'\emph{Am J Transplant}, 10: 2215-2222, 2010.
#'.
#'
#'@references Sellares J, Reeve J, Loupy A, et al., Molecular diagnosis of
#'antibody-mediated rejection in human kidney transplants,
#'\emph{Am J Transplant}, 13:971-983, 2013.
#'
#'@references Broin PO, Hayde N, Bao Y, et al.,  A pathogenesis-based transcript
#'signature in donor-specific antibody-positive kidney transplant patients with
#'normal biopsies, \emph{Genomics Data} 2: 357-60, 2014.
#'
#'@format a \code{gmt} object containing 9 gene sets specific to kidney
#'transplant (see \code{\link[GSA]{GSA.read.gmt}}), which is simply a
#'\code{list} with the 3 following components:\itemize{
#'\item \code{genesets}: a \code{list} of \code{n} gene identifiers vectors 
#'composing eachgene set (each gene set is represented as the vector of the 
#'gene identifiers composing it)
#'\item \code{geneset.names}: a vector of length \code{n} containing the gene 
#'set names (i.e. gene sets identifiers)
#'\item{geneset.descriptions}: a vector of length \code{n} containing gene set 
#'descriptions (e.g. textual information on their biological function)
#'}
#'
#'
#'@examples
#' data('PBT_gmt')
#' PBT_gmt
#'
#'
#' @source \url{http://atagc.med.ualberta.ca/Research/GeneLists}
#'
#' @keywords datasets
#' @docType data
NULL