CellDesigner: A Graphical Biological Network Editor and Workbench Interfacing Simulator View Full Text


Ontology type: schema:Chapter     


Chapter Info

DATE

2007

AUTHORS

Akira Funahashi , Mineo Morohashi , Yukiko Matsuoka , Akiya Jouraku , Hiroaki Kitano

ABSTRACT

Understanding the logic and dynamics of gene-regulatory and biochemical networks is a major challenge of systems biology. To facilitate this research topic, we have developed CellDesigner, a modeling tool of gene-regulatory and biochemical networks. CellDesigner supports users to easily create such networks, using solidly defined and comprehensive graphical representation (SBGN, systems biology graphical notation). CellDesigner is systems biology markup language (SBML) compliant, and has Systems Biology Workbench(SBW)-enabled software so that it can import/export SBML-described documents and integrate with other SBW-enabled simulation/analysis software packages. CellDesigner also supports simulation and parameter search, which is supported by integration with SBML ordinary differential equation (ODE) Solver, enabling us to simulate through our sophisticated graphical user interface. We can also browse and modify existing SBML models with references to existing databases. CellDesigner is implemented in Java; thus, it runs on various platforms such as Windows, Linux, and MacOS X. CellDesigner is freely available from our Web site at http://celldesigner.org/. More... »

PAGES

422-434

Book

TITLE

Introduction to Systems Biology

ISBN

978-1-58829-706-8
978-1-59745-531-2

Identifiers

URI

http://scigraph.springernature.com/pub.10.1007/978-1-59745-531-2_21

DOI

http://dx.doi.org/10.1007/978-1-59745-531-2_21

DIMENSIONS

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