Background: Standard graphs, where each edge links two nodes, have been extensively used to represent the connectivity of metabolic networks. It is based on this representation th...
We extend our previous work on the exploration of static metabolic networks to evolving, and therefore dynamic, pathways. We apply our visualization software to data from a simulat...
Markus Rohrschneider, Alexander Ullrich, Andreas K...
Background: Many real networks can be understood as two complementary networks with two kind of nodes. This is the case of metabolic networks where the first network has chemical ...
Jose C. Nacher, Nobuhisa Ueda, Takuji Yamada, Mino...
Background: In recent years, an extensive characterization of network structures has been made in an effort to elucidate design principles of metabolic networks, providing valuabl...
Background: To infer the tree of life requires knowledge of the common characteristics of each species descended from a common ancestor as the measuring criteria and a method to c...
Sok June Oh, Je-Gun Joung, Jeong Ho Chang, Byoung-...
Background: The exploration of the structural topology and the organizing principles of genomebased large-scale metabolic networks is essential for studying possible relations bet...
Jing Zhao, Hong Yu, Jianhua Luo, Zhi-Wei Cao, Yi-X...
Background: Recently there has been a lot of interest in identifying modules at the level of genetic and metabolic networks of organisms, as well as in identifying single genes an...
Metabolic networks are naturally represented as directed hypergraphs in such a way that metabolites are nodes and enzyme-catalyzed reactions form (hyper)edges. The familiar operat...
Christian V. Forst, Christoph Flamm, Ivo L. Hofack...
Background: Modeling of metabolic networks includes tasks such as network assembly, network overview, calculation of metabolic fluxes and testing the robustness of the network. Re...
Roland Schwarz, Chunguang Liang, Christoph Kaleta,...
Background: Cellular metabolism is one of the most investigated system of biological interactions. While the topological nature of individual reactions and pathways in the network...