BEclear example methylation data {BEclear} | R Documentation

## Example data set for the BEclear-package

### Description

Example data set for the BEclear-package

### Usage

    data(BEclearData)

### Format

An example data matrix that is filled with beta values originally stemming from breast cancer data from the TCGA portal [1], colnames are sample ids, rownames are gene names. Generally, beta values are calculated by dividing the methylated signal by the sum of the unmethylated and methylated signals from a DNA methylation microrarray. The sample data used here contains averaged beta values of probes that belong to promoter regions of single genes. Another possibility would be to use beta values of single probes, whereby the probe names should then be used instead of the gene names as rownames of the matrix.

### References

Cancer Genome Atlas Research Network, Weinstein JN, Collisson EA, Mills GB, Shaw KRM, Ozenberger BA, Ellrott K, Shmulevich I, Sander C, Stuart JM (2013). “The Cancer Genome Atlas Pan-Cancer analysis project.” Nature genetics, 45(10), 1113–20. ISSN 1546-1718, doi: 10.1038/ng.2764, http://www.ncbi.nlm.nih.gov/pubmed/24071849 http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=PMC3919969.

[Package BEclear version 2.3.1 Index]