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Minimal intervention strategies in logical signaling networks with ASP

  • Proposing relevant perturbations to biological signaling networks is central to many problems in biology and medicine because it allows for enabling or disabling certain biological outcomes. In contrast to quantitative methods that permit fine-grained (kinetic) analysis, qualitative approaches allow for addressing large-scale networks. This is accomplished by more abstract representations such as logical networks. We elaborate upon such a qualitative approach aiming at the computation of minimal interventions in logical signaling networks relying on Kleene's three-valued logic and fixpoint semantics. We address this problem within answer set programming and show that it greatly outperforms previous work using dedicated algorithms.

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Author:Roland Kaminski, Torsten SchaubORCiDGND, Anne SiegelORCiD, Santiago Videla
Parent Title (English):Postprints der Universität Potsdam : Mathematisch Naturwissenschaftliche Reihe
Series (Serial Number):Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe (596)
Document Type:Postprint
Date of first Publication:2019/02/13
Year of Completion:2013
Publishing Institution:Universität Potsdam
Release Date:2019/02/13
Tag:circuits; models; sets; systems biology; transduction
First Page:675
Last Page:690
Source:Theory and Practice of Logic Programming 13 (2013) 4-5, pp.675–690 DOI 10.1017/S1471068413000422
Organizational units:Mathematisch-Naturwissenschaftliche Fakultät
Dewey Decimal Classification:0 Informatik, Informationswissenschaft, allgemeine Werke / 00 Informatik, Wissen, Systeme / 004 Datenverarbeitung; Informatik
Peer Review:Referiert
Publication Way:Open Access
Grantor:Cambridge University Press (CUP)
Licence (German):License LogoKeine Nutzungslizenz vergeben - es gilt das deutsche Urheberrecht
Notes extern:Bibliographieeintrag der Originalveröffentlichung/Quelle