\name{osmo}
\alias{osmo}
\docType{data}
\title{Osmoshock data set (PPI and expression)}
\description{
  A combined yeast data set with protein-protein interactions and gene expression (osmotick shock response). Gene expression profiles are transformed into links by computing a Pearson correlation for all pairs of genes and treating all correlations above 0.85 as additional links.
}
\usage{data(osmo)}
\format{ List of following objects:
  \describe{
	\item{ppi}{PPI data matrix}
	\item{exp}{gene expression profiles data matrix}
	\item{gids}{Vector of gene ids corresponding to indices used in data matrices}
	\item{obs}{Gene expression observation details}
	\item{combined.links}{pooled matrix of PPI and expression links}
  }
}
\details{
  Number of genes: 1711, number of interactions: 10250, number of gene expression observations: 133, number of total links with PPI and expression links: 14256.
}
\source{
  PPI data pooled from yeast data sets of [1] and [2]. Dna damage expression set of [3].
}
\references{
Ulitsky, I. and Shamir, R. \emph{Identification of functional modules using network topology and high-throughput data.} BMC Systems Biology 2007, 1:8.

Nariai, N., Kolaczyk, E. D. and Kasif, S. \emph{Probabilistic Protein Function Predition from Heterogenous Genome-Wide Data}. PLoS ONE 2007, 2(3):e337.

O'Rourke, S. and Herskowitz, I. \emph{Unique and redundant roles for Hog MAPK pathway components as revealed by whole-genome expression analysis.} Molecular Biology of the Cell 2004, 15:532-42.
}
\examples{
data(osmo)
}
\keyword{datasets}