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

fYear

2009

fDate

3-5 Aug. 2009

Firstpage

301

Lastpage

307

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;

fLanguage

English

Publisher

ieee

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

Type

conf

DOI

10.1109/IJCBS.2009.94

Filename

5260660