MBMEcHMSPCI: HMSPCI data complex estimates

In apComplex: Estimate protein complex membership using AP-MS protein data

Description

Affiliation matrices with rows corresponding to proteins and columns corresponding to complexes.

Usage

data(MBMEcHMSPCI)
data(SBMHcHMSPCI)
data(UnRBBcHMSPCI)

Details

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.

Source

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).

References

Ho, et al. Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry. Nature 415, 180-183 (2002).

See Also

HMSPCI,HMSPCIgraph,findComplexes

Examples

data(MBMEcHMSPCI)
MBMEcHMSPCI[1:4,1:4]
which(MBMEcHMSPCI[,"MBME1"]==1)

apComplex documentation built on Nov. 8, 2020, 7:43 p.m.