RT Journal Article
T1 When metabolism meets topology: Reconciling metabolite and reaction networks.
A1 Montañez, Raúl
A1 Medina-Torres, Miguel Ángel
A1 Solé, Ricard V.
A1 Rodríguez-Caso, Carlos Francisco
K1 Bioinformática
K1 Metabolismo - Simulación por ordenador
AB The search for a systems-level picture of metabolism as a web of molecular interactions provides a paradigmatic example of how the methods used to characterize a system can bias the interpretation of its functional meaning. Metabolic maps have been analyzed using novel techniques from network theory, revealing some non-trivial, functionally relevant properties. These include a small-world structure and hierarchical modularity. However, as discussed here, some of these properties might actually result from an inappropriate way of defining network interactions. Starting from the so-called bipartite organization of metabolism, where the two meaningful subsets (reactions and metabolites) are considered, most current works use only one of the subsets by means of so-called graph projections. Unfortunately, projected graphs often ignore relevant biological and chemical constraints, thus leading to statistical artifacts. Some of these drawbacks and alternative approaches need to be properly addressed.
PB Wiley
YR 2010
FD 2010
LK https://hdl.handle.net/10630/32290
UL https://hdl.handle.net/10630/32290
LA eng
NO Política de acceso abierto tomada de: https://v2.sherpa.ac.uk/id/publication/14547
NO This work was supported by the EU 6th framework project ComplexDis (NEST-043241, CRC), James S. McDonnell Foundation and Santa Fe Institute (RVS), grants SAF 2008-02522 (Spanish Ministry of Science and Innovation), Fundación Ramón Areces, P07-CVI-02999 and group BIO-267 (Andalusian Government). The ‘‘CIBER de Enfermedades Raras’’ is an initiative of the ISCIII (Spain).
DS RIUMA. Repositorio Institucional de la Universidad de Málaga
RD 19 ene 2026