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Cellerator: extending a computer algebra system to include biochemical arrows for signal transduction simulationsCellerator describes single and multi-cellular signal transduction networks (STN) with a compact, optionally palette-driven, arrow-based notation to represent biochemical reactions and transcriptional activation. Multi-compartment systems are represented as graphs with STNs embedded in each node. Interactions include mass-action, enzymatic, allosteric and connectionist models. Reactions are translated into differential equations and can be solved numerically to generate predictive time courses or output as systems of equations that can be read by other programs. Cellerator simulations are fully extensible and portable to any operating system that supports Mathematica, and can be indefinitely nested within larger data structures to produce highly scaleable models.
Document ID
20040087775
Acquisition Source
Legacy CDMS
Document Type
Reprint (Version printed in journal)
Authors
Shapiro, Bruce E.
(Jet Propulsion Lab., California Inst. of Tech. Pasadena CA United States)
Levchenko, Andre
Meyerowitz, Elliot M.
Wold, Barbara J.
Mjolsness, Eric D.
Date Acquired
August 21, 2013
Publication Date
March 22, 2003
Publication Information
Publication: Bioinformatics (Oxford, England)
Volume: 19
Issue: 5
ISSN: 1367-4803
Subject Category
Life Sciences (General)
Distribution Limits
Public
Copyright
Other
Keywords
Non-NASA Center
NASA Program Fundamental Space Biology
NASA Discipline Cell Biology

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