Comprehensive survey of SNPs in the Affymetrix exon array using the 1000 Genomes dataset.

ABSTRACT: Microarray gene expression data has been used in genome-wide association studies to allow researchers to study gene regulation as well as other complex phenotypes including disease risks and drug response. To reach scientifically sound conclusions from these studies, however, it is necessary to get reliable summarization of gene expression intensities. Among various factors that could affect expression profiling using a microarray platform, single nucleotide polymorphisms (SNPs) in target mRNA may lead to reduced signal intensity measurements and result in spurious results. The recently released 1000 Genomes Project dataset provides an opportunity to evaluate the distribution of both known and novel SNPs in the International HapMap Project lymphoblastoid cell lines (LCLs). We mapped the 10

SUBMITTER: Gamazon ER 

PROVIDER: S-EPMC2826392 | biostudies-literature | 2010 Feb

REPOSITORIES: biostudies-literature