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BioNetWiki is read-only unless you obtain a username and password by sending email to bionetgen@lanl.gov. In addition, pdf files and downloads are only accessible when logged in.
This wiki serves the BioNetGen user community by providing information about BioNetGen and tools for the development, annotation, and discussion of BioNetGen models.
News
- POSTDOCTORAL POSITIONS available for rule-based modelers. See announcements at Science Careers, TIPTOP, TedJob, math-jobs.com, systems-biology.org, PhDs.org, and Jobs@LANL.
Main Menu
- Quick Start - Start here if you are new to BioNetGen.
- Installation Guide - Detailed instructions for downloading and installing the standalone distribution.
- Distributions - Go here to download the latest BioNetGen distribution.
- Documentation
- Model Examples
About BioNetGen
BioNetGen is software for the specification and simulation of rule-based models of biochemical systems, including signal transduction, metabolic, and genetic regulatory networks. A comprehensive introduction to modeling with BioNetGen is available and is augmented by the models found in the BioNetGen distribution and in the Model Examples. The BioNetGen language has recently been extended to include explicit representation of compartments. A recent review of methods for rule-based modeling is available in Science Signaling (formerly known as Science's STKE).
The BioNetGen software package was initially developed by the Cell Signaling Team at Los Alamos National Laboratory. The current development team includes researchers in the Theoretical Division and Center for Nonlinear Studies at Los Alamos National Laboratory, the Departments of Biology and Computer Science at the University of New Mexico, the Department of Computational Biology at the University of Pittsburgh School of Medicine, the Center for Cell Analysis and Modeling at the University of Connecticut Health Center, and the Department of Biological Chemistry at the Johns Hopkins University School of Medicine.
BioNetGen is supported by NIH grant GM076570 and work has been performed under DOE contract DE-AC52-06NA25396. Additional support for BioNetGen has been provided by NIH grants GM085273, AI35997, and CA109552, NSF grant 0829788, the Arizona Biomedical Research Commission, and the Department of Computational Biology at the University of Pittsburgh School of Medicine.
