TCGAbiolinks: an R/Bioconductor package for integrative analysis of TCGA data.

ABSTRACT: The Cancer Genome Atlas (TCGA) research network has made public a large collection of clinical and molecular phenotypes of more than 10 000 tumor patients across 33 different tumor types. Using this cohort, TCGA has published over 20 marker papers detailing the genomic and epigenomic alterations associated with these tumor types. Although many important discoveries have been made by TCGA's research network, opportunities still exist to implement novel methods, thereby elucidating new biological pathways and diagnostic markers. However, mining the TCGA data presents several bioinformatics challenges, such as data retrieval and integration with clinical data and other molecular data types (e.g. RNA and DNA methylation). We developed an R/Bioconductor package called TCGAbiolinks to address th

SUBMITTER: Colaprico A 

PROVIDER: S-EPMC4856967 | biostudies-literature | 2016 May

REPOSITORIES: biostudies-literature