CNGPLD: case-control copy-number analysis using Gaussian process latent difference.

ABSTRACT:

Motivation

Cross-sectional analyses of primary cancer genomes have identified regions of recurrent somatic copy-number alteration, many of which result from positive selection during cancer formation and contain driver genes. However, no effective approach exists for identifying genomic loci under significantly different degrees of selection in cancers of different subtypes, anatomic sites or disease stages.

Results

CNGPLD is a new tool for performing case-control somatic copy-number analysis that facilitates the discovery of differentially amplified or deleted copy-number aberrations in a case group of cancer compared with a control group of cancer. This tool uses a Gaussian process statistical framework in order to account for the covariance structure of copy-number data a

SUBMITTER: Shih DJH 

PROVIDER: S-EPMC9004638 | biostudies-literature | 2022 Apr

REPOSITORIES: biostudies-literature