POSPS {yeastGSData}R Documentation

A Platinum Standard Data Set

Description

While Yu et al. call this a platinum standard data set, it is really a gold standard data set for binary physical interactions.

Usage

data(POSPS)

Format

A data frame with 1867 observations on the following 2 variables.

ORF1
a character vector
ORF2
a character vector

Details

These data, reported in the paper below, are intended to represent well established binary physical interactions between proteins. This contrasts with the gold standard MIPSGS which describes multi-protein complexes.

Ye et al, describe the construction as follows: “ Briefly, the data set contains physical interactions from complex protein structures in the Protein Data Bank (Westbrook et al. 2003), verified interactions from small-scale experiments (Mewes et al. 2000; Xenarios et al. 2002; Bader et al. 2003), and protein pairs from small MIPS catalog complexes (4 or fewer subunits).”

References

Annotation Transfer Between Genomes: Protein-Protein Interologs and Protein-DNA Regulogs, H. Yu et al, Genome Research, 1107-1118, 2004.

Examples

data(POSPS)

[Package yeastGSData version 0.1.0 Index]