R/data.R

In jpvert/tigress: Trustful Inference of Gene REgulation using Stability Selection

#' Data from E. coli
#'
#' This is data from Faith et al. (2007) containing a compendium of 445 gene
#' expression array for 4345 genes of E. coli, downloaded from Many Microbe
#' Microarrays Database (version 3 build 1) available at http://m3d.mssm.edu,
#' and a set of 3293 known regulations between 154TF and 1211 target genes
#' obtained from regulonDB v4 available at http://regulondb.ccg.unam.mx .
#'
#' Faith JJ, Hayete B, Thaden JT, Mogno I, Wierzbowski J, et al.
#' (2007) Large-scale mapping and validation of Escherichia coli transcriptional
#' regulation from a compendium of expression profiles. PLoS Biol 5(1): e8.
#' doi:10.1371/journal.pbio.0050008.
#' @format A list with 2 elements: \describe{ \item{exp}{A dataframe of
#'   expression values (genes in rows, arrays in columns)} \item{reg}{A
#'   dataframe of regulations between a transcription factor (first column) and
#'   a target gene (second column). The numbers in the dataframe correspond to
#'   row numbers in the \code{exp} dataframe of expressions.} }
"ecoli"