Estimation of parent specific DNA copy number in tumors using high-density genotyping arrays.

ABSTRACT: Chromosomal gains and losses comprise an important type of genetic change in tumors, and can now be assayed using microarray hybridization-based experiments. Most current statistical models for DNA copy number estimate total copy number, which do not distinguish between the underlying quantities of the two inherited chromosomes. This latter information, sometimes called parent specific copy number, is important for identifying allele-specific amplifications and deletions, for quantifying normal cell contamination, and for giving a more complete molecular portrait of the tumor. We propose a stochastic segmentation model for parent-specific DNA copy number in tumor samples, and give an estimation procedure that is computationally efficient and can be applied to data from the current high den

SUBMITTER: Chen H 

PROVIDER: S-EPMC3029233 | biostudies-literature | 2011 Jan

REPOSITORIES: biostudies-literature