\name{dna}
\alias{dna}
\docType{data}
\title{Dna damage data set (PPI and expression)}
\description{
  A combined yeast data set with protein-protein interactions and gene expression (dna damage). 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(dna)}
\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: 1823, number of interactions: 12382, number of gene expression observations: 52, number of total links with PPI and expression links: 15547.
}
\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.

Gasch, A., Huang, M., Metzner, S., Botstein, D. and Elledge, S. \emph{Genomic expression responses to DNA-damaging agents and the regulatory role of the yeast ATR homolog Mex1p.} Molecular Biology of the Cell 2001, 12:2987-3003.
}
\examples{
data(dna)
}
\keyword{datasets}