SigCheck (version 2.4.0)

knownSignatures: Previously identified gene signatures for use in sigCheckKnown

Description

Previously identified gene signature sets. These include three signatures sets from Venet et. al.

Usage

data(knownSignatures)

Format

The data object knownSignatures is a list of sets of gene signatures. Each set is a list of gene signatures. Each signature is a vector of gene names. Gene signature sets include:

• "cancer": 48 gene signatures derived from cancer samples, from Venet et. al.
• "proliferation": 5 gene signatures comprising genes associated with cell proliferation, including a "super signature", from Venet et. al.
• "non.cancer": 3 gene signatures derived from non-cancer sources, from Venet et. al.

Source

http://www.ploscompbiol.org/article/fetchSingleRepresentation.action?uri=info:doi/10.1371/journal.pcbi.1002240.s001

Details

These data are taken directly from the supplemental material for Venet et. al "Most random gene expression signatures are significantly associated with breast cancer outcome".

References

Venet, David, Jacques E. Dumont, and Vincent Detours. "Most random gene expression signatures are significantly associated with breast cancer outcome." PLoS Computational Biology 7.10 (2011): e1002240.

Examples

data(knownSignatures)
names(knownSignatures)
names(knownSignatures$cancer)
knownSignatures$cancer$VANTVEER