Identification of biochemical network modules based on shortest retroactive distances.

ABSTRACT: Modularity analysis offers a route to better understand the organization of cellular biochemical networks as well as to derive practically useful, simplified models of these complex systems. While there is general agreement regarding the qualitative properties of a biochemical module, there is no clear consensus on the quantitative criteria that may be used to systematically derive these modules. In this work, we investigate cyclical interactions as the defining characteristic of a biochemical module. We utilize a round trip distance metric, termed Shortest Retroactive Distance (ShReD), to characterize the retroactive connectivity between any two reactions in a biochemical network and to group together network components that mutually influence each other. We evaluate the metric on two typ

SUBMITTER: Sridharan GV 

PROVIDER: S-EPMC3213171 | biostudies-literature | 2011 Nov

REPOSITORIES: biostudies-literature