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Unique identifier OMICS_06006
Name MOMA
Alternative name Minimisation of Metabolic Adjustment
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Windows
Computer skills Advanced
Stability Stable
Maintained Yes

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Publication for Minimisation of Metabolic Adjustment

MOMA citations

 (106)
library_books

Predicting the accumulation of storage compounds by Rhodococcus jostii RHA1 in the feast famine growth cycles using genome scale flux balance analysis

2018
PLoS One
PMCID: 5832212
PMID: 29494607
DOI: 10.1371/journal.pone.0191835

[…] attan norm (sum of absolute) of all reaction fluxes (i.e., |v|1, minimization of fluxes, or minFluxes) [], (2) minimization of metabolic adjustment between the feast and famine periods (environmental MOMA) [].For a given substrate uptake rate (here the one experimentally observed), the storage fluxes were highly sensitive to the growth- and non-growth-associated maintenance energy parameters (GAM […]

library_books

Integration of genome scale metabolic networks into whole body PBPK models shows phenotype specific cases of drug induced metabolic perturbation

2018
NPJ Syst Biol Appl
PMCID: 5827733
PMID: 29507756
DOI: 10.1038/s41540-018-0048-1

[…] resulting multi-scale PBPK-GSMN models allow the quantification of organ-specific endogenous cellular responses and changes in exometabolome pools. Notably, the workflow is fundamentally based on the MOMA algorithm, but extends it to the dynamic situation of drug-induced flux alterations of the endogenous metabolism relative to an unperturbed reference state. Deviations from the reference state in […]

library_books

Mathematical models of lignin biosynthesis

2018
Biotechnol Biofuels
PMCID: 5806469
PMID: 29449882
DOI: 10.1186/s13068-018-1028-9

[…] are known, it is not easy to compute the corresponding flux distribution, because metabolic systems almost always contain more reactions than variables. In this case, optimization methods like FBA or MOMA need to be employed.In the Brachypodium study, we chose an alternative to FBA and MOMA. Namely, we intended to obtain the most likely solution without specifying an objective function for the FBA […]

library_books

Evolutionary adaptations to new environments generally reverse plastic phenotypic changes

2018
Nat Commun
PMCID: 5783951
PMID: 29367589
DOI: 10.1038/s41467-017-02724-5

[…] artments. Because these reactions do not have dedicated enzymes and are not “mutable”, we excluded them from the list of phenotypic traits considered. In total, 1811 reactions were considered.We used MOMA to estimate plastic flux changes when E. coli is shifted from one environment to another. The mathematical form of MOMA isminimizev-v02,subjecttoSv=0andα≤v≤β,where v is the vector of all reaction […]

library_books

Post translational regulation of metabolism in fumarate hydratase deficient cancer cells

2018
Metab Eng
PMCID: 5805855
PMID: 29191787
DOI: 10.1016/j.ymben.2017.11.011

[…] s. To avoid infeasible solutions due to measurement precision, the measured rates were fitted to the steady-state solution space using a linear implementation of minimization of metabolic adjustment (MOMA) (). Next, the models were simplified using flux variability analysis (FVA), thereby removing any reaction that is not capable of carrying flux. The models were then simulated using parsimonious […]

call_split

An integrated computational and experimental study uncovers FUT9 as a metabolic driver of colorectal cancer

2017
Mol Syst Biol
PMCID: 5740504
PMID: 29196508
DOI: 10.15252/msb.20177739
call_split See protocol

[…] the metabolic model prevents Ley glycolipid formation and secretion. To chart the network‐wide metabolic alterations induced by FUT9 inactivation, we performed a Minimization Of Metabolic Adjustment (MOMA) (Segrè et al, ) analysis to predict the metabolic state after FUT9 KD in late‐stage colorectal cancers, simulated by the Gene Inactivity Moderated by Metabolism and Expression (GIMME) algorithm […]

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MOMA institution(s)
Lipper Center for Computational Genetics and Department of Genetics, Harvard Medical School, Boston, MA, USA

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