Quantification of normal cell fraction and copy number neutral LOH in clinical lung cancer samples using SNP array data.

ABSTRACT:

Background

Technologies based on DNA microarrays have the potential to provide detailed information on genomic aberrations in tumor cells. In practice a major obstacle for quantitative detection of aberrations is the heterogeneity of clinical tumor tissue. Since tumor tissue invariably contains genetically normal stromal cells, this may lead to a failure to detect aberrations in the tumor cells.

Principal finding

Using SNP array data from 44 non-small cell lung cancer samples we have developed a bioinformatic algorithm that accurately models the fractions of normal and tumor cells in clinical tumor samples. The proportion of normal cells in combination with SNP array data can be used to detect and quantify copy number neutral loss-of-heterozygosity (CNNLOH) in the tumor cell

SUBMITTER: Goransson H 

PROVIDER: S-EPMC2699026 | biostudies-literature | 2009 Jun

REPOSITORIES: biostudies-literature