English
 
User Manual Privacy Policy Disclaimer Contact us
  Advanced SearchBrowse

Item

ITEM ACTIONSEXPORT
  ALC : automated reduction of rule-based models

Koschorreck, M., & Gilles, E. D. (2008). ALC: automated reduction of rule-based models. BMC Systems Biology, 2: 91. doi:10.1186/1752-0509-2-91.

Item is

Basic

show hide
Item Permalink: http://hdl.handle.net/11858/00-001M-0000-0013-96B5-2 Version Permalink: http://hdl.handle.net/11858/00-001M-0000-002C-8B27-7
Genre: Journal Article

Files

show Files
hide Files
:
eDoc_395957_2008.pdf (Publisher version), 488KB
Name:
eDoc_395957_2008.pdf
Description:
-
Visibility:
Public
MIME-Type / Checksum:
application/pdf / [MD5]
Technical Metadata:
Copyright Date:
-
Copyright Info:
© 2008 Koschorreck and Gilles; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Locators

show

Creators

show
hide
 Creators:
Koschorreck, M.1, Author              
Gilles, E. D.1, Author              
Affiliations:
1Systems Biology, Max Planck Institute for Dynamics of Complex Technical Systems, Max Planck Society, ou_1738155              

Content

show
hide
Free keywords: -
 Abstract: Background Combinatorial complexity is a challenging problem for the modeling of cellular signal transduction since the association of a few proteins can give rise to an enormous amount of feasible protein complexes. The layer-based approach is an approximative, but accurate method for the mathematical modeling of signaling systems with inherent combinatorial complexity. The number of variables in the simulation equations is highly reduced and the resulting dynamic models show a pronounced modularity. Layer-based modeling allows for the modeling of systems not accessible previously. Results ALC (Automated Layer Construction) is a computer program that highly simplifies the building of reduced modular models, according to the layer-based approach. The model is defined using a simple but powerful rule-based syntax that supports the concepts of modularity and macrostates. ALC performs consistency checks on the model definition and provides the model output in different formats (C MEX, MATLAB, Mathematica and SBML) as ready-to-run simulation files. ALC also provides additional documentation files that simplify the publication or presentation of the models. The tool can be used offline or via a form on the ALC website. Conclusions ALC allows for a simple rule-based generation of layer-based reduced models. The model files are given in different formats as ready-to-run simulation files. © 2008 Koschorreck and Gilles, licensee BioMed Central Ltd. [accessed December 17, 2008]

Details

show
hide
Language(s): eng - English
 Dates: 2008
 Publication Status: Published in print
 Pages: -
 Publishing info: -
 Table of Contents: -
 Rev. Method: Peer
 Identifiers: eDoc: 395957
Other: 23/08
DOI: 10.1186/1752-0509-2-91
 Degree: -

Event

show

Legal Case

show

Project information

show

Source 1

show
hide
Title: BMC Systems Biology
Source Genre: Journal
 Creator(s):
Affiliations:
Publ. Info: -
Pages: - Volume / Issue: 2 Sequence Number: 91 Start / End Page: - Identifier: -