ppipred {ppiData}R Documentation

Protein-protein predictions

Description

The data in ppipred are those provided by Liu et al for S. cervisiae protein protein interactions.

Usage

data(ppipred)

Format

A data frame with 20088 observations on the following 3 variables.

Gene1
A vector of the gene names for one interactor.
Gene2
A vector of the gene names for the other interactor.
Probability
A vectror containing the probability they give to the interaction.

Details

Liu et al discuss a method for estimating protein-protein interactions from existing data, across species. They have provided the data with the following description: “We compute domain-domain interaction probabilities from Y2H protein-protein interactions, and then use these domain-domain interaction probabilities to compute the interaction probability between every pair of proteins. The prediction results with a false positive rate fp=3E-4 and a false negative rate fn=0.85 are listed blow.”

Source

http://bioinformatics.med.yale.edu/interaction/

References

Inferring protein-protein interactions through high-throughput interaction data from diverse organisms, Y. Liu, N. Liu and H. Zhao, Bioinformatics, 2005, 21, 3279-3285.

Examples

data(ppipred)

[Package ppiData version 0.1.7 Index]