Realdata: A dataset object derived from real DNA methylation and gene...

In FEM: Identification of Functional Epigenetic Modules

Description

Realdata is a list containing data derived from mRNA Expression and DNA methylation from an endometrial cancer study. See Jones et al PLoS Med.2013 for details about the data.

Usage

data(Realdata)

Value

statM	a matrix of statistics and p-values of differential DNA Methylation between endometrial cancer and normal tissue (cancer compared to normal) with rownames annotated with entrez gene IDs.
statR	a matrix of statistics and p-values of differential RNA Expression between endometrial cancer and normal tissue (cancer compared to normal) with rownames annotated with entrez gene IDs.
adjacency	adjacency matrix of PPI network, with number of rows equal to the number of rows of Realdata$statM, ordered in same way and with same gene identifier. The resulting graph is connected.
fembi.o	this entry represents the output of the function DoFEMbi() (see example below). This is included so as to avoid having to rerun the (lengthy) example from scratch.

References

Jones A, Teschendorff AE, Li Q, Hayward JD, Kannan A, et al. (2013) Role of dna methylation and epigenetic silencing of hand2 in endometrial cancer development. PLoS Med 10:e1001551.

Examples

#data(Realdata);
#intFEM.o <- list(statM=Realdata$statM,statR=Realdata$statR,adj=Realdata$adjacency);

FEM documentation built on April 28, 2020, 8:56 p.m.