andreyev2010: Six sub-cellular fraction data from mouse macrophage-like...

In lgatto/pRolocdata: Data accompanying the pRoloc package

Six sub-cellular fraction data from mouse macrophage-like RAW264.7 cells from Andreyev et al. (2009)

Description

Data from Andreyev AY, Shen Z, Guan Z, Ryan A, Fahy E, Subramaniam S, Raetz CR, Briggs S, Dennis EA. Application of proteomic marker ensembles to subcellular organelle identification. Mol Cell Proteomics. 2010 Feb;9(2):388-402. DOI:http://dx.doi.org/10.1074/mcp.M900432-MCP200. PubMed PMID:19884172; PubMed Central PMCID:PMC2830848.

The 6 subcellular fractions are nuclei, mitochondria, cytoplasm, endoplasmic reticulum, plasma membrane and dense microsomal fraction.

Usage

data("andreyev2010")
data("andreyev2010rest")
data("andreyev2010activ")

Details

andreyev2010 is the full data where missing values were replaced by 0. andreyev2010rest and andreyev2010activ contain the resting (control) and Kdo2-lipid A-treated (activated) data respectively, which have been normalised (each reporter intensity was normalised by the sum over all replicates).

Source

These data were generated from supplemental tables S1 (quantitative data) and 2 (organelle markers) (http://www.mcponline.org/content/9/2/388/suppl/DC1). See inst/scripts/andreyev2010.R for details.

Examples

data(andreyev2010rest, verbose = TRUE)
data(andreyev2010activ, verbose = TRUE)

library("pRoloc")
par(mfrow = c(1, 2))
plot2D(andreyev2010rest, main = "Resting (control)")
plot2D(andreyev2010activ, main = "Kdo2-lipid A-treated")
addLegend(andreyev2010activ)

lgatto/pRolocdata documentation built on April 7, 2023, 1:56 a.m.