cancer_gene_sites {ActiveDriverWGS}R Documentation

post-translational modification sites found in cancer genes

Description

post-translational modification sites found in cancer genes

Usage

data(cancer_gene_sites)

Format

A data frame containing the following columns: chr, start, end, id

chr

autosomal chromosomes as chr1 to chr22 and sex chromosomes as chrX and chrY

start

the start position of the site in base 0 coordinates (BED format)

end

the end position of the site in base 0 coordinates (BED format)

id

the site identifier - each site should contain only 1 segment and a unique id. If ids are duplicated, each segment of the site will be treated as an individual site. Sites can be coding or noncoding such as phosphosites of protein coding genes in genomic coordinates or transcription factor binding sites of active enhancers.

Source

PubMed

References

Wadi, Lina, et al. "ActiveDriverDB: human disease mutations and genome variation in post-translational modification sites of proteins." Nucleic Acids Res. (2018): Jan 4;46(D1):D901-D910. (PubMed)

Examples

data(cancer_gene_sites)

data(cll_mutations)
data(cancer_genes)
ActiveDriverWGS(mutations = cll_mutations, elements = cancer_genes, sites = cancer_gene_sites)


[Package ActiveDriverWGS version 1.1.2 Index]