Background: This paper considers the problem of identifying pathways through metabolic networks that relate to a specific biological response. Our proposed model, HME3M, first ide...
—Metabolic pathways are crucial to our understanding of biology. The speed at which new organisms are being sequenced is outstripping our ability to experimentally determine thei...
Luca Pireddu, Brett Poulin, Duane Szafron, Paul Lu...
Metabolism can be regarded as a network of biochemical reactions, connected via their substrates and products. A metabolic pathway is thus a coordinated series of reactions, and i...
Steady state flux balance analysis (FBA) for cellular metabolism is used, e.g., to seek information on the activity of the different pathways under equilibrium conditions, or as a...
Abstract. CBS is a Calculus of Biochemical Systems intended to allow the modelling of metabolic, signalling and regulatory networks in a natural and modular manner. In this paper w...