Inferring clonal heterogeneity in cancer using SNP arrays and whole genome sequencing.

ABSTRACT:

Motivation

Clonal heterogeneity is common in many types of cancer, including chronic lymphocytic leukemia (CLL). Previous research suggests that the presence of multiple distinct cancer clones is associated with clinical outcome. Detection of clonal heterogeneity from high throughput data, such as sequencing or single nucleotide polymorphism (SNP) array data, is important for gaining a better understanding of cancer and may improve prediction of clinical outcome or response to treatment. Here, we present a new method, CloneSeeker, for inferring clinical heterogeneity from sequencing data, SNP array data, or both.

Results

We generated simulated SNP array and sequencing data and applied CloneSeeker along with two other methods. We demonstrate that CloneSeeker is more accurate

SUBMITTER: Zucker MR 

PROVIDER: S-EPMC6736450 | biostudies-literature | 2019 Sep

REPOSITORIES: biostudies-literature