Modeling biological networks by action languages via answer set programming
- 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. 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 Arabidopsis thaliana and sketch the functionality of our system and its usage.
Author details: | Steve Dworschak, Susanne Grell, Victoria J. Nikiforova, Torsten SchaubORCiDGND, Joachim SelbigGND |
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URN: | urn:nbn:de:kobv:517-opus4-429846 |
DOI: | https://doi.org/10.25932/publishup-42984 |
ISSN: | 1866-8372 |
Title of parent work (German): | Postprints der Universität Potsdam : Mathematisch Naturwissenschaftliche Reihe |
Publication series (Volume number): | Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe (843) |
Publication type: | Postprint |
Language: | English |
Date of first publication: | 2020/03/10 |
Publication year: | 2008 |
Publishing institution: | Universität Potsdam |
Release date: | 2020/03/10 |
Tag: | action language; answer set programming; biological network model |
Issue: | 843 |
Number of pages: | 47 |
Source: | Constraints 13 (2008) 21–65 DOI: 10.1007/s10601-007-9031-y |
Organizational units: | Mathematisch-Naturwissenschaftliche Fakultät |
DDC classification: | 0 Informatik, Informationswissenschaft, allgemeine Werke / 00 Informatik, Wissen, Systeme / 004 Datenverarbeitung; Informatik |
Peer review: | Referiert |
Publishing method: | Open Access |
License (German): | Keine öffentliche Lizenz: Unter Urheberrechtsschutz |