Systems Biology Approach for Mapping TNFα-NFκB Mathematical Model to a Protein Interaction Map
Mahesh Visvanathan*, 1, Christian Baumgartner2, Bernhard Tilg 2, Gerald Henry Lushington1
1 Bioinformatics Core Facility, University of Kansas, Lawrence, KS 66047, USA
2 University for Health Sciences, Medical Informatics and Technology (UMIT) Hall in Tyrol, Austria
Abstract
We investigated different mathematical models concerning signaling pathways and built a new pathway model for TNFα-NFκB signaling using an integrative analytical approach. This integrative approach consists of a knowledgebase, model designing/visualization and simulation environments. In particular, our new TNFα-NFκB signaling pathway model was developed based on literature studies and the use of ordinary differential equations and a detailed protein-protein interaction connectivity map within this approach. Using the most detailed mathematical model as a base model, three new proteins -- TRAF1, FLIP, and MEKK3 -- were identified and included in our new model. Our results show that this integrative approach offers the most detailed and consistent mathematical description for TNFα-NFκB signaling and further increases the understanding of TNFα-NFκB signaling pathway. This tool can be downloaded through the following link (http://sourceforge.net/projects/dmsp11/).
Keywords: TNFα mediated NFκB signaling pathway, protein-protein interaction and mathematical model.
Article Information
Article History:
Received Date: 3/11/2009
Revision Received Date: 1/1/2010
Acceptance Date: 1/3/2010
Electronic publication date: 29/4/2010
Collection year: 2010
© Visvanathan et al.; Licensee Bentham Open.
open-access license: This is an open access article licensed under the terms of the Creative Commons Attribution Non-Commercial License (
http: //creativecommons.org/licenses/by-nc/3.0/) which permits unrestricted, non-commercial use, distribution and reproduction in any medium, provided the work is properly cited.
* Address correspondence to this author at the Bioinformatics Core Facility, University of Kansas, Lawrence, KS 66047, USA; Tel: 785-864-3337; Fax: 785-864-8141;
E-mail: mvisvanathan@ku.edu
Open Peer Review Details |
Manuscript submitted on 3-11-2009 |
Original Manuscript |
Systems Biology Approach for Mapping TNFα-NFκB Mathematical Model to a Protein Interaction Map |