An integrative framework for the identification of double minute chromosomes using next generation sequencing data.

ABSTRACT:

Background

Double minute chromosomes are circular fragments of DNA whose presence is associated with the onset of certain cancers. Double minutes are lethal, as they are highly amplified and typically contain oncogenes. Locating double minutes can supplement the process of cancer diagnosis, and it can help to identify therapeutic targets. However, there is currently a dearth of computational methods available to identify double minutes. We propose a computational framework for the idenfication of double minute chromosomes using next-generation sequencing data. Our framework integrates predictions from algorithms that detect DNA copy number variants, and it also integrates predictions from algorithms that locate genomic structural variants. This information is used by a graph-based

SUBMITTER: Hayes M 

PROVIDER: S-EPMC4423570 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature