Title :
Automaton Models of Computational Genetic Regulatory Networks with Combinatorial Gene-Protein Logical Interactions
Author :
Chen, Peter C Y ; Weng, Yulin
Author_Institution :
Dept. of Mech. Eng., Nat. Univ. of Singapore, Singapore, Singapore
Abstract :
This article presents a formal framework for modeling computational genetic regulatory networks as automata, with multi-threshold protein concentration and combinatorial logical gene-protein interactions. By computing the intersection of the languages generated by these automata we obtain the complete set of pathways in a gene network. We illustrate the effectiveness of our framework in the modeling of (i) morphogenesis in Arabidopsis and (ii) regulation in phage lambda.
Keywords :
automata theory; combinatorial mathematics; formal languages; genetics; proteins; arabidopsis; automaton model; combinatorial gene-protein logical interaction; computational genetic regulatory network; language generation; morphogenesis; multithreshold protein concentration; Automata; Bioinformatics; Biological control systems; Biological system modeling; Biological systems; Biology computing; Computational modeling; Computer networks; Genetics; Protein engineering; Gene networks; automata; combinatorial logic;
Conference_Titel :
Bioinformatics, Systems Biology and Intelligent Computing, 2009. IJCBS '09. International Joint Conference on
Conference_Location :
Shanghai
Print_ISBN :
978-0-7695-3739-9
DOI :
10.1109/IJCBS.2009.94
