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The results from normal mode analysis are consistent with the regions that undergo protection from HDX in the dimer state.
Flux-balance analysis (FBA) and elementary mode analysis are perhaps two of the most popular and powerful.
Simulation details, as well as the methods of quasi-harmonic mode analysis, are provided in Supporting Methods.
In addition, modules dedicated to constraint-based modeling have been developed for matlab: fluxanalyzer (Klamt et al., 2007), the cobra toolbox (Becker et al., 2007), or metatool (von Kamp & Schuster, 2006) for elementary mode analysis are good representatives.
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The structure was thoroughly minimized to reach a minimum before the normal mode analysis was made in GROMACS52.
According to regulatory filings, Honda wanted to await the outcome of a "failure mode analysis" being conducted by Takata.
The normal mode analysis is used to obtain the exact expressions for the considered variables.
Inverse metabolic engineering based on elementary mode analysis was applied to maximize the biomass yield of Escherchia coli MG1655.
Harmonic mode analysis was used to account for differences in conformational flexibility of low-energy sub-states.
A component mode analysis is carried out based upon the use of constraint conditions and Lagrange multipliers.
A normal mode analysis is used to determine the stability of a set of mixed hyperbolic/elliptic equations.
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