Mining functionally relevant gene sets for analyzing physiologically novel clinical expression data.

ABSTRACT: Gene set analyses have become a standard approach for increasing the sensitivity of transcriptomic studies. However, analytical methods incorporating gene sets require the availability of pre-defined gene sets relevant to the underlying physiology being studied. For novel physiological problems, relevant gene sets may be unavailable or existing gene set databases may bias the results towards only the best-studied of the relevant biological processes. We describe a successful attempt to mine novel functional gene sets for translational projects where the underlying physiology is not necessarily well characterized in existing annotation databases. We choose targeted training data from public expression data repositories and define new criteria for selecting biclusters to serve as candidate g

SUBMITTER: Turcan S 

PROVIDER: S-EPMC3201790 | biostudies-literature | 2011

REPOSITORIES: biostudies-literature