Elucidating regulatory mechanisms downstream of a signaling pathway using informative experiments.

ABSTRACT: Signaling cascades are triggered by environmental stimulation and propagate the signal to regulate transcription. Systematic reconstruction of the underlying regulatory mechanisms requires pathway-targeted, informative experimental data. However, practical experimental design approaches are still in their infancy. Here, we propose a framework that iterates design of experiments and identification of regulatory relationships downstream of a given pathway. The experimental design component, called MEED, aims to minimize the amount of laboratory effort required in this process. To avoid ambiguity in the identification of regulatory relationships, the choice of experiments maximizes diversity between expression profiles of genes regulated through different mechanisms. The framework takes advan

SUBMITTER: Szczurek E 

PROVIDER: S-EPMC2724975 | biostudies-literature | 2009

REPOSITORIES: biostudies-literature