Minimal cut sets in a metabolic network are elementary modes in a dual network
Abstract Motivation: Elementary modes (EMs) and minimal cut sets (MCSs) provide
important techniques for metabolic network modeling. Whereas EMs describe minimal …
important techniques for metabolic network modeling. Whereas EMs describe minimal …
Algorithms for evaluation of minimal cut sets
M Radom, A Rybarczyk, I Piekarz… - Journal of Biomedical …, 2024 - Elsevier
Objective: We propose a way to enhance the evaluation of minimal cut sets (MCSs) in
biological systems modeled by Petri nets, by providing criteria and methodology for …
biological systems modeled by Petri nets, by providing criteria and methodology for …
In Silico Knockout Screening of Plasmodium falciparum Reactions and Prediction of Novel Essential Reactions by Analysing the Metabolic Network
Malaria is an infectious disease that affects close to half a million individuals every year and
Plasmodium falciparum is a major cause of malaria. The treatment of this disease could be …
Plasmodium falciparum is a major cause of malaria. The treatment of this disease could be …
Computing irreversible minimal cut sets in genome-scale metabolic networks via flux cone projection
A Röhl, T Riou, A Bockmayr - Bioinformatics, 2019 - academic.oup.com
Abstract Motivation Minimal cut sets (MCSs) for metabolic networks are sets of reactions
which, if they are removed from the network, prevent a target reaction from carrying flux. To …
which, if they are removed from the network, prevent a target reaction from carrying flux. To …
MCS2: minimal coordinated supports for fast enumeration of minimal cut sets in metabolic networks
Motivation Constraint-based modeling of metabolic networks helps researchers gain insight
into the metabolic processes of many organisms, both prokaryotic and eukaryotic. Minimal …
into the metabolic processes of many organisms, both prokaryotic and eukaryotic. Minimal …
On inner and outer descriptions of the steady-state flux cone of a metabolic network
A Larhlimi, A Bockmayr - … on Computational Methods in Systems Biology, 2008 - Springer
Constraint-based approaches have proved successful in analyzing complex metabolic
networks. They restrict the range of all possible behaviors that a metabolic system can …
networks. They restrict the range of all possible behaviors that a metabolic system can …
New concepts and tools in constraint-based analysis of metabolic networks
A Larhlimi - 2009 - refubium.fu-berlin.de
Constraint-based approaches have proved successful in analyzing complex metabolic
networks. They restrict the range of all possible behaviors that a metabolic system can …
networks. They restrict the range of all possible behaviors that a metabolic system can …
Metabolic networks, thermodynamic constraints, and matroid theory
AC Reimers - 2014 - refubium.fu-berlin.de
Biologische Experimente sind zeitraubend und teuer. Deshalb werden Computer immer
häufiger benutzt um solche Experimente zu bestimmen, die am ehesten erfolgreich sind und …
häufiger benutzt um solche Experimente zu bestimmen, die am ehesten erfolgreich sind und …
Study of the evolution of symbiosis at the metabolic level using models from game theory and economics
M Wannagat - 2016 - inria.hal.science
Symbiosis, a term that brings all types of species interaction under one banner, is defined as
a close association of different species living together. Species interactions that comprise …
a close association of different species living together. Species interactions that comprise …
Reduction, Projection, and Simplification of Metabolic Networks
ACM Röhl - 2018 - refubium.fu-berlin.de
Systems biology is an interdisciplinary field of research that combines mathematics,
computer science, and engineering in order to analyse biological processes. It has become …
computer science, and engineering in order to analyse biological processes. It has become …