A computational procedure to identify significant overlap of differentially expressed and genomic imbalanced regions in cancer datasets.

ABSTRACT: The integration of high-throughput genomic data represents an opportunity for deciphering the interplay between structural and functional organization of genomes and for discovering novel biomarkers. However, the development of integrative approaches to complement gene expression (GE) data with other types of gene information, such as copy number (CN) and chromosomal localization, still represents a computational challenge in the genomic arena. This work presents a computational procedure that directly integrates CN and GE profiles at genome-wide level. When applied to DNA/RNA paired data, this approach leads to the identification of Significant Overlaps of Differentially Expressed and Genomic Imbalanced Regions (SODEGIR). This goal is accomplished in three steps. The first step extends to

SUBMITTER: Bicciato S 

PROVIDER: S-EPMC2731905 | biostudies-literature | 2009 Aug

REPOSITORIES: biostudies-literature