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Complex networks: the key to systems biology
(Sociedade Brasileira de Genética, 2008)
Though introduced recently, complex networks research has grown steadily because of its potential to represent, characterize and model a wide range of intricate natural systems and phenomena. Because of the intrinsic ...
Network models in the study of metabolism
(Pontificia Universidad Católica de Valparaíso, 2009)
EvoMS: an evolutionary tool to find de novo metabolic pathways (IF 1.472)
(Elsevier, 2015-08)
The evolutionary metabolic synthesizer (EvoMS) is an evolutionary tool capable of finding novel metabolic pathways linking several compounds through feasible reactions. It allows system biologists to explore different ...
Weighting dissimilarities to detect communities in networks
(Royal Soc., 2015)
Many complex systems can be described as networks exhibiting inner organization as communities of nodes. The identification of communities is a key factor to understand community-based functionality. We propose a family ...
Combining graph and flux based structures to decipher phenotypic essential metabolites within metabolic networks
(PeerJ Inc., 2017)
Back ground. The emergence of functions in biological systems is a long-standing issue that can now be addressed at the cell level with the emergence of high throughput technologies for genome sequencing and phenotyping. ...
Spectral analysis and the dynamic response of complex networks
(American Physical SocCollege PkEUA, 2005)
The Network Organization Of Protein Interactions In The Spliceosome Is Reproduced By The Simple Rules Of Food-web Models
(NATURE PUBLISHING GROUPLONDON, 2015)
Design of stable large-scale metabolic networks
(Elsevier Science, 2009-08)
In this work we propose an eigenvalue optimization approach to ensure steady state stability of the Embden-Meyerhof-Parnas pathway, the pentose-phosphate pathway and the phosphotransferase system of Escherichia coli. The ...
Network connectance analysis as a tool to understand homeostasis of plants under environmental changes
(2013-09-01)
The homeostasis of plants under environmental constraints may be maintained by alterations in the organization of their physiological networks. The ability to control a network depends on the strength of the connections ...
Enumeration of minimal stoichiometric precursor sets in metabolic networks
(2016)
Background: What an organism needs at least from its environment to produce a set of metabolites, e.g. target(s) of interest and/or biomass, has been called a minimal precursor set. Early approaches to enumerate all minimal ...