loading...
Representing and reasoning about signal networks: an illustration using NF\kappaB dependent signaling pathways
Stanford, California August 11-August 14
DOI Bookmark: http://doi.ieeecomputersociety.org/10.1109/CSB.2003.1227427IEEE Computer Society Bioinformatics ...
 This Article 
 
PDF
HTML
 
 Share 
   
 Bibliographic References 
   
 Add to: 
 
Digg
Furl
Spurl
Blink
Simpy
Google
Del.icio.us
Y!MyWeb
 
 Search 
   
Chitta Baral, Arizona State University
Karen Chancellor, Arizona State University
Nam Tran, Arizona State University
Nhan Tran, Translational Genomics Research Institute
We propose a formal language to represent and reason about signal transduction networks. The existing approaches such as ones based on Petri nets, and \pi-calculus fall short in many ways and our work suggests that an artificial Intelligence (AI) based approach may be well suited for many aspects. We apply a form of action language to represent and reason about NF/kappaB dependent signaling pathways. Our language supports several essential features of reasoning with signal transduction knowledge, such as: reasoning with partial (or incomplete) knowledge, and reasoning about triggered evolutions of the world and elaboration tolerance. Because of its growing important role in cellular functions, we select NF/kappaB dependent signaling to be our test bed. NF/kappaB is a central mediator of the immune response, and it can regulate stress responses, as well as cell death/survival in several cell types. While many extracellular signals may lead to the activation of NF/kappaB, few related pathways are elucidated. We study the tasks of representation of pathways, reasoning with pathways, explaining observations, and planning to alter the outcomes; and show that all of them can be well formulated in our framework. Thus our work shows that our AI based approach is a good candidate for feasible and practical representation of and reasoning about signal networks.
Citation:
Chitta Baral, Karen Chancellor, Nam Tran, Nhan Tran, "Representing and reasoning about signal networks: an illustration using NF\kappaB dependent signaling pathways," csb, pp.623, IEEE Computer Society Bioinformatics Conference (CSB'03), 2003
Usage of this product signifies your acceptance of the Terms of Use.


Suggestions