Exp2_R100_prot: Exp2_R100_prot dataset

In samWieczorek/DAPARdata: Data accompanying the DAPAR and Prostar packages

Exp2_R100_prot dataset

Description

This dataset is the final outcome of a quantitative mass spectrometry-based proteomic analysis of two samples containing different concentrations of 48 human proteins (UPS1 standard from Sigma-Aldrich) within a constant yeast background (see Ramus et al. (2015) for details). It contains the abundance values of the different human and yeast peptides identified and quantified in these two conditions. The two conditions represent the measured abundances of peptides when respectively 1 fmol and 100 fmol of UPS1 human proteins were mixed with the yeast extract before mass spectrometry analyses. This results in a concentration ratio of 100. Three technical replicates were acquired for each condition.

The dataset is either available as a CSV file (see inst/extdata/Exp2_R100_prot.txt), or as a MSnSet structure (Exp2_R100_prot.MSnset). In the latter case, the quantitative data are those of the raw intensities.

Usage

data(Exp2_R100_prot)

Format

An object of class MSnSet related to proteins quantification. It contains 6 samples divided into two conditions (1 fmol and 100 fmol) and 923 proteins.

The data frame exprs(Exp2_R100_prot) contains six columns that are the quantitation of proteins for the six replicates.

The data frame fData(Exp2_R100_prot) contains the meta data about the proteins.

The data frame pData(Exp2_R100_prot) contains the experimental design and gives few informations about the samples.

Value

An object of class MSnSet related to proteins quantification.

References

Ramus C, Hovasse A, Marcellin M, Hesse AM, Mouton-Barbosa E, Bouyssie D, Vaca S, Carapito C, Chaoui K, Bruley C, Garin J, Cianferani S, Ferro M, Dorssaeler AV, Burlet-Schiltz O, Schaeffer C, Coute Y, Gonzalez de Peredo A. Spiked proteomic standard dataset for testing label-free quantitative software and statistical methods. Data Brief. 2015 Dec 17;6:286-94.PMID: 26862574.

samWieczorek/DAPARdata documentation built on April 22, 2022, 9:35 p.m.