Rule-based modeling: a computational approach for studying biomolecular site dynamics in cell signaling systems.

ABSTRACT: Rule-based modeling was developed to address the limitations of traditional approaches for modeling chemical kinetics in cell signaling systems. These systems consist of multiple interacting biomolecules (e.g., proteins), which themselves consist of multiple parts (e.g., domains, linear motifs, and sites of phosphorylation). Consequently, biomolecules that mediate information processing generally have the potential to interact in multiple ways, with the number of possible complexes and posttranslational modification states tending to grow exponentially with the number of binary interactions considered. As a result, only large reaction networks capture all possible consequences of the molecular interactions that occur in a cell signaling system, which is problematic because traditional mode

SUBMITTER: Chylek LA 

PROVIDER: S-EPMC3947470 | biostudies-literature | 2014 Jan-Feb

REPOSITORIES: biostudies-literature