Power to detect selective allelic amplification in genome-wide scans of tumor data.

ABSTRACT:

Motivation

Somatic amplification of particular genomic regions and selection of cellular lineages with such amplifications drives tumor development. However, pinpointing genes under such selection has been difficult due to the large span of these regions. Our recently-developed method, the amplification distortion test (ADT), identifies specific nucleotide alleles and haplotypes that confer better survival for tumor cells when somatically amplified. In this work, we focus on evaluating ADT's power to detect such causal variants across a variety of tumor dataset scenarios.

Results

Towards this end, we generated multiple parameter-based, synthetic datasets-derived from real data-that contain somatic copy number aberrations (CNAs) of various lengths and frequencies over germlin

SUBMITTER: Dewal N 

PROVIDER: S-EPMC2852215 | biostudies-literature | 2010 Feb

REPOSITORIES: biostudies-literature