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Metabolic plasticity in synthetic lethal mutants: viability at higher cost
Francesco Alessandro Massucci, Francesc Sagués, M. Ángeles Serrano
The most frequent form of pairwise synthetic lethality (SL) in metabolic networks is known as plasticity synthetic lethality (PSL). It occurs when the simultaneous inhibition of pa…
Mapping high-growth phenotypes in the flux space of microbial metabolism
Oriol Güell, Francesco Alessandro Massucci, Francesc Font-Clos +2
Experimental and empirical observations on cell metabolism cannot be understood as a whole without their integration into a consistent systematic framework. However, the characteri…
Assessing the significance of knockout cascades in metabolic networks
Oriol Güell, Francesc Sagués, Georg Basler +2
Complex networks have been shown to be robust against random structural perturbations, but vulnerable against targeted attacks. Robustness analysis usually simulates the removal of…
Predicting effects of structural stress in a genome-reduced model bacterial metabolism
Oriol Güell, Francesc Sagués, M. Ángeles Serrano
We studied in silico effects of structural stress in Mycoplasma pneumoniae, a genome-reduced model bacterial organism, by tracking the damage propagating on its metabolic network a…
Uncovering the hidden geometry behind metabolic networks
M. Angeles Serrano, Marian Boguna, Francesc Sagues
Metabolism is a fascinating cell machinery underlying life and disease and genome-scale reconstructions provide us with a captivating view of its complexity. However, deciphering t…
Network-based confidence scoring system for genome-scale metabolic reconstructions
M. Ángeles Serrano, Francesc Sagués
Reliability on complex biological networks reconstructions remains a concern. Although observations are getting more and more precise, the data collection process is yet error pron…