A Gold Standard for Negative Interactions

Description

These data were supplied as supplementary material, for the paper below, as a data set for negative interactions.

Usage

data(NEGGS)

Format

A data frame with 2708746 observations on the following 4 variables.

ORF1

The ORF of one interactor.

ORF2

The ORF of the second interactor.

LOC1

A description of where the first interactor is (typically) located in the cell.

LOC2

A description of where the first interactor is (typically) located in the cell.

Details

The data are potentially problematic, since not being in the same cellular component does not mean that two proteins will not interact in some particular assay.

Only a very broad grouping of location is given, and one may want to refer to a more recent and potentially more authoratative source.

Source

http://interolog.gersteinlab.org

References

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

Examples

data(NEGGS)
table(NEGGS$LOC1)
table(NEGGS$LOC2)