dataset: Data for Examples

In CeRNASeek: Identification and Analysis of ceRNA Regulation

Description

This object contains data for examples.

Usage

data(dataset)

Format

A list with 4 variables:

miRtar

MiRNA–target regulation,assembled genome-wide miRNA-gene regulation by TargetScan,It includes 44 rows standing for miRNA-gene regulation pairs in glioblastoma and 2 columns (the first is dataframe header).

geneexp

a dataframe representing target regulations expression ,all of which are gene expression value,in glioblastoma.It includes 6 rows standing for 6 gene targets and 541 columns standing for 541 samples.Its rownames are gene symbols.

miRexp

a dataframe representing miRNA expression profile in glioblastoma.It includes 57 rows standing for 57 miRNA and 541 columns standing for 541 samples.Its rownames are miRNA symbols.

Pre.ceRNA

a data frame representing the ceRNA identified in the pre-experiment using the method provided by the software to draw a network map.

mres

a data frame representing the MRE.

GOterms

a list representing that goterm of interest and all gene sets in the term.

background

a character representing a gene set in which GOterm annotated genes must be.

exp.sur

a data frame representing specifying expression and survival information.Its rownames are sample names.Its colnames are names in triplets and survival information

train

a data frame representing specifying train sample names

test

a data frame representing specifying test sample names.

Details

All epression data is from a study about glioblastoma.The miRNA-gene regulation information is from TargetScan.

Source

Network, Atlas T C G. et al.

References

Network, Atlas T C G . Corrigendum: Comprehensive genomic characterization defines human glioblastoma genes and core pathways[J]. Nature, 2013, 494(7438):506-506.

Examples

data(dataset)
## maybe str(dataset) ; ...

CeRNASeek documentation built on April 29, 2020, 9:37 a.m.