Paper Info
Title
Cellerator: extending a computer algebra system to include biochemical arrows for signal transduction simulations.
Abstract
Cellerator 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. Multicompartment 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.
Year
DOI
Venue
2003
10.1093/bioinformatics/btg042
BIOINFORMATICS
Keywords
Field
DocType
human computer interface,signal transduction,signal transmission,genetics,natural language processing,algebra,differential equation,computer graphics,data structure,terminology,documentation,biochemistry,computer simulation,system of equations,simulation,operating system
Data structure,Differential equation,Notation,System of linear equations,Computer science,Symbolic computation,Software,Bioinformatics,Computer graphics,Connectionism
Journal
Volume
Issue
ISSN
19
5.0
1367-4803
Citations 
PageRank 
References 
39
7.37
0
Authors
5
Name
Order
Citations
PageRank
Bruce E Shapiro131437.15
Andre Levchenko26613.48
Elliot M Meyerowitz35511.09
Barbara J. Wold48910.32
Eric Mjolsness51058140.00