Modeling Biological Networks by Action Languages via Answer Set Programming

摘要

We describe an approach to modeling biological networks by action languages via answer set programming. To this end, we propose an action language for modeling biological networks, building on previous work by Baral et al. (Proceedings of the twelfth international conference on intelligent systems for molecular biology/third European conference on computational biology (ISMB'04/ECCB'04) (pp. 15-22), 2004). We introduce its syntax and semantics along with a translation into answer set programming, an efficient Boolean Constraint Programming Paradigm. Finally, we describe one of its applications, namely, the sulfur starvation response-pathway of the model plant Arahidopsis thaliana and sketch the functionality of our system and its usage.