Three-level representation of metabolic networks

Anna Zhukova (1, 2) , David James Sherman (1)

1 MAGNOME - Models and Algorithms for the Genome
2 LaBRI - Laboratoire Bordelais de Recherche en Informatique

The complexity of genome-scale metabolic models makes them quite difficult for human users to read, since they contain thousands of reactions that must be included for accurate computer simulation. The web-based navigation system Mimoza allows a human expert to explore metabolic network models in a semantically zoomable manner: The most general view represents the compartments of the model; the next view shows the generalized versions of reactions and metabolites in each compartment; and the most detailed view represents the initial network with the generalization-based layout (where similar metabolites and reactions are placed next to each other). It allows a human expert to grasp the general structure of the network and analyze it in a top-down manner.

Mots clés: Metabolic modeling; model generalization; visualization

Domaines: Bio-informatique [q-bio.QM]

Anna Zhukova, David James Sherman. Three-level representation of metabolic networks. Journées EDMI, Nov 2014, Bordeaux, France. ⟨hal-01081711⟩