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BioJADE specifications

Information


Unique identifier OMICS_04798
Name BioJADE
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Java
Computer skills Medium
Stability Stable
Maintained Yes

Versioning


No version available

Publication for BioJADE

BioJADE citations

 (3)
library_books

Evolving Robust Gene Regulatory Networks

2015
PLoS One
PMCID: 4304830
PMID: 25616055
DOI: 10.1371/journal.pone.0116258

[…] igm [, ]. Addressing this need an array of computational tools and software has been developed to aid the design, simulation and optimization process in synthetic biology. Many of these tools such as Biojade, ProMoT, TikerCell, Jarnac, GenoCAD etc. have become very popular and proven useful for the practitioners. Nevertheless, the issue of robustness in computer aided design of synthetic gene netw […]

library_books

A survey of enabling technologies in synthetic biology

2013
J Biol Eng
PMCID: 3684516
PMID: 23663447
DOI: 10.1186/1754-1611-7-13

[…] Thirty software tools, many of which have been recently reviewed [], were listed in Question 10 throughout the duration of the survey: ApE (http://biologylabs.utah.edu/jorgensen/wayned/ape), BioJADE (http://web.mit.edu/jagoler/www/biojade), BioNetCAD (http://www.sysdiag.cnrs.fr/BioNetCAD), Cell Designer (http://celldesigner.org), ClothoCAD (http://www.clothocad.org), COPASI (http://www.co […]

library_books

Mathematical Modeling: Bridging the Gap between Concept and Realization in Synthetic Biology

2010
PMCID: 2878679
PMID: 20589069
DOI: 10.1155/2010/541609

[…] the modeling outcomes, thus relieving users of the burden of setting up and solving mathematical equations. A nonexhaustive listing of these software includes Athena (http://www.codeplex.com/athena), BioJade (http://web.mit.edu/jagoler/www/biojade), Gepasi (http://www.gepasi.org), SynBioSS (http://synbioss.sourceforge.net/), which reads and writes in SBML, and TinkerCell (http://www.tinkercell.com […]

Citations

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BioJADE institution(s)
Synthetic Biology Engineering Research Center, University of California Berkeley, CA, USA

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