Recovering rearranged cancer chromosomes from karyotype graphs.

ABSTRACT:

Background

Many cancer genomes are extensively rearranged with highly aberrant chromosomal karyotypes. Structural and copy number variations in cancer genomes can be determined via abnormal mapping of sequenced reads to the reference genome. Recently it became possible to reconcile both of these types of large-scale variations into a karyotype graph representation of the rearranged cancer genomes. Such a representation, however, does not directly describe the linear and/or circular structure of the underlying rearranged cancer chromosomes, thus limiting possible analysis of cancer genomes somatic evolutionary process as well as functional genomic changes brought by the large-scale genome rearrangements.

Results

Here we address the aforementioned limitation by introducing a n

SUBMITTER: Aganezov S 

PROVIDER: S-EPMC6915857 | biostudies-literature | 2019 Dec

REPOSITORIES: biostudies-literature