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Article

GPHMM: an integrated hidden Markov model for identification of copy number alteration and loss of heterozygosity in complex tumor samples using whole genome SNP arrays.

Nucleic acids research - 1 Jul 2011

Li Ao, Liu Zongzhi, Lezon-Geyda Kimberly, Sarkar Sudipa, Lannin Donald, Schulz Vincent, Krop Ian, Winer Eric, Harris Lyndsay, Tuck David

Abstract excerpt

There is an increasing interest in using single nucleotide polymorphism (SNP) genotyping arrays for profiling chromosomal rearrangements in tumors, as they allow simultaneous detection of copy number and loss of heterozygosity with high resolution. Critical issues such as signal baseline shift due to aneuploidy, normal cell contamination, and the presence of GC content bias have been reported to dramatically...

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PMID: 21398628
DOI: 10.1093/nar/gkr014
PMCID: PMC3130254

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