Tumor transcriptome sequencing reveals allelic expression imbalances associated with copy number alterations.

ABSTRACT: Due to growing throughput and shrinking cost, massively parallel sequencing is rapidly becoming an attractive alternative to microarrays for the genome-wide study of gene expression and copy number alterations in primary tumors. The sequencing of transcripts (RNA-Seq) should offer several advantages over microarray-based methods, including the ability to detect somatic mutations and accurately measure allele-specific expression. To investigate these advantages we have applied a novel, strand-specific RNA-Seq method to tumors and matched normal tissue from three patients with oral squamous cell carcinomas. Additionally, to better understand the genomic determinants of the gene expression changes observed, we have sequenced the tumor and normal genomes of one of these patients. We demonstrat

SUBMITTER: Tuch BB 

PROVIDER: S-EPMC2824832 | biostudies-literature | 2010 Feb

REPOSITORIES: biostudies-literature