CVE: an R package for interactive variant prioritisation in precision oncology.

ABSTRACT:

Background

An increasing number of precision oncology programmes are being launched world-wide. To support this development, we present the Cancer Variant Explorer (CVE), an R package with an interactive Shiny web browser interface.

Results

Leveraging Oncotator and the Drug Gene Interaction Database, CVE offers exploration of variants within single or multiple tumour exomes to identify drivers, resistance mechanisms and to assess druggability. We present example applications including the analysis of an individual patient and a cohort-wide study, and provide a first extension of CVE by adding a tumour-specific co-expression network.

Conclusions

The CVE package allows interactive variant prioritisation to expedite the analysis of cancer sequencing studies. Our framewor

SUBMITTER: Mock A 

PROVIDER: S-EPMC5445311 | biostudies-literature | 2017 May

REPOSITORIES: biostudies-literature