foster2006: PCP data from Foster et al. (2006)

In lgatto/pRolocdata: Data accompanying the pRoloc package

PCP data from Foster et al. (2006)

Description

This is the data from Foster et al., A Mammalian Organelle Map by Protein Correlation Profiling, Cell 2006 (PMID 16615899). See below for more details.

Usage

data(foster2006)

Format

The data is an instance of class MSnSet from package MSnbase.

Details

This is a PCP experiment. Label-free quantification has been done on a totla of 26 high and low density-separated fractions (see pData(foster2006)). A total of 1555 proteins have been quantified in a subset of the fractions. The proteins are described in the featureData slot. Chi^2 calculations, as defined in the PCP experiment, has been performed using marker proteins for a total of 8 organelles, as well as the authors' original assignment and notes are available in the featureData slot.

Source

Supplemental data on http://www.cell.com/abstract/S0092-8674(06)00369-2.

References

Foster LJ, de Hoog CL, Zhang Y, Zhang Y, Xie X, Mootha VK, Mann M. A mammalian organelle map by protein correlation profiling. Cell. 2006 Apr 7;125(1):187-99. PubMed PMID: 16615899.

Examples

data(foster2006)
foster2006
phenoData(foster2006)
featureData(foster2006)
## organelle marker proteins
table(fData(foster2006)$train)

lgatto/pRolocdata documentation built on Nov. 27, 2024, 12:12 a.m.