Extracting expression modules from perturbational gene expression compendia.

ABSTRACT:

Background

Compendia of gene expression profiles under chemical and genetic perturbations constitute an invaluable resource from a systems biology perspective. However, the perturbational nature of such data imposes specific challenges on the computational methods used to analyze them. In particular, traditional clustering algorithms have difficulties in handling one of the prominent features of perturbational compendia, namely partial coexpression relationships between genes. Biclustering methods on the other hand are specifically designed to capture such partial coexpression patterns, but they show a variety of other drawbacks. For instance, some biclustering methods are less suited to identify overlapping biclusters, while others generate highly redundant biclusters. Also, none

SUBMITTER: Maere S 

PROVIDER: S-EPMC2386865 | biostudies-literature | 2008 Apr

REPOSITORIES: biostudies-literature