Dynetica statistics

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Dynetica specifications


Unique identifier OMICS_11486
Name Dynetica
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
Computer skills Advanced
Version 2.0
Stability Beta
Maintained Yes


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  • person_outline Lingchong You <>

Publication for Dynetica

Dynetica in publications

PMCID: 3637171
PMID: 23638057
DOI: 10.1371/journal.pone.0062380

[…] tool may not be as high as tools tailored to specific situations., currently, there are several popular simulation tools available, such as e_cell , dizzy , virtual cell , cellline , stochsim and dynetica . these tools are user-friendly and can work well on many biochemical networks and simplified gene regulatory processes. however, these tools simplify gene regulatory processes […]

PMCID: 3225856
PMID: 19615050
DOI: 10.1186/1752-0509-3-72

[…] kf, or dissociation of one molecule into others with a rate, kr. the user can then specify time points for the addition or removal of molecules., deterministic simulations were carried out using dynetica []., crosstalk was incorporated into the simulation as follows, based on previous definitions [,,]. crosstalk, essentially a type of interference, is only relevant when two or more systems […]

PMCID: 2265471
PMID: 18463697
DOI: 10.1371/journal.pcbi.1000013

[…] inputs and, correspondingly, flexible dynamic range for the output governed by protein stability modulation., based on the reaction network outlined in , we developed a kinetic mathematical model in dynetica, a graphics-based, integrated simulation platform . we further simplified the model by lumping the sequential destabilization processes together into the phosphorylation rate constant […]

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Dynetica institution(s)
Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, CA, USA; Department of Computer Sciences, University of Wisconsin-Madison, Madison, WI, USA; Department of Chemical Engineering, University of Wisconsin-Madison, Madison, WI, USA
Dynetica funding source(s)
Funding of this work was provided by the National Science Foundation.

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