Lessons from a decade of integrating cancer copy number alterations with gene expression profiles.

ABSTRACT: Over the last decade, multiple functional genomic datasets studying chromosomal aberrations and their downstream effects on gene expression have accumulated for several cancer types. A vast majority of them are in the form of paired gene expression profiles and somatic copy number alterations (CNA) information on the same patients identified using microarray platforms. In response, many algorithms and software packages are available for integrating these paired data. Surprisingly, there has been no serious attempt to review the currently available methodologies or the novel insights brought using them. In this work, we discuss the quantitative relationships observed between CNA and gene expression in multiple cancer types and biological milestones achieved using the available methodologies

SUBMITTER: Huang N 

PROVIDER: S-EPMC3357489 | biostudies-literature | 2012 May

REPOSITORIES: biostudies-literature