HMSPCI complexes {apComplex} | R Documentation |
Affiliation matrices with rows corresponding to proteins and columns corresponding to complexes.
data(MBMEcHMSPCI) data(SBMHcHMSPCI) data(UnRBBcHMSPCI)
These are the results from an analysis of the HMS-PCI data (Ho et al., 2002)
described by Scholtens and Gentleman (2004) and Scholtens, Vidal, and Gentleman (submitted). These
estimates were constructed using findComplexes
with a sensitivity
parameter of .75, specificity of .99, and Beta=-0.2 for externally derived
similarity measure based on Gene Ontology cellular component annotation (see
Scholtens and Gentleman (2004)).
MBMEcHMSPCI
contains 242 multi-bait-multi-edge complex estimates.
SBMHcHMSPCI
contains 437 single-bait-multi-hit complex estimates.
UnRBBcHMSPCI
contains 329 unreciprocated bait-bait complex estimates. These data are also available at http://www.bioconductor.org/Docs/Papers/2003/apComplex.
Scholtens D and Gentleman R. Making sense of high-throughput protein-protein interaction data. Statistical Applications in Genetics and Molecular Biology 3, Article 39 (2004).
Scholtens D, Vidal M, and Gentleman R. Local modeling of global interactome networks. Submitted.
Ho, et al. Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry. Nature 415, 180-183 (2002).
HMSPCI
,HMSPCIgraph,\code{findComplexes}
data(MBMEcHMSPCI) MBMEcHMSPCI[1:4,1:4] which(MBMEcHMSPCI[,"MBME1"]==1)