Reference alignment of SNP microarray signals for copy number analysis of tumors.

ABSTRACT:

Unlabelled

A new procedure to align single nucleotide polymorphism (SNP) microarray signals for copy number analysis is proposed. For each individual array, this reference alignment procedure (RAP) uses a set of selected markers as internal references to direct the signal alignment. RAP aligns the signals so that each array has a similar signal distribution among its reference markers. An accompanying reference selection algorithm (RSA) uses genotype calls and initial signal intensities to choose two-copy markers as the internal references for each array. After RSA and RAP are applied, each array has a similar distribution of signals of two-copy markers so that across-array signal comparisons are biologically meaningful. An upper bound for a statistical metric of signal misalignmen

SUBMITTER: Pounds S 

PROVIDER: S-EPMC2639073 | biostudies-literature | 2009 Feb

REPOSITORIES: biostudies-literature