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. Bioinformatics 21, 3548-3557 (2005).
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)