These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.
144 related articles for article (PubMed ID: 30945242)
1. Strategy-Driven Exploration for Rule-Based Models of Biochemical Systems with PORGY. Andrei O; Fernández M; Kirchner H; Pinaud B Methods Mol Biol; 2019; 1945():43-70. PubMed ID: 30945242 [TBL] [Abstract][Full Text] [Related]
2. Rule-based modelling of biological systems using regulated rewriting. Troják M; Šafránek D; Pastva S; Brim L Biosystems; 2023 Mar; 225():104843. PubMed ID: 36736686 [TBL] [Abstract][Full Text] [Related]
3. Hierarchical graphs for rule-based modeling of biochemical systems. Lemons NW; Hu B; Hlavacek WS BMC Bioinformatics; 2011 Feb; 12():45. PubMed ID: 21288338 [TBL] [Abstract][Full Text] [Related]
5. Using RuleBuilder to Graphically Define and Visualize BioNetGen-Language Patterns and Reaction Rules. Suderman R; Fricke GM; Hlavacek WS Methods Mol Biol; 2019; 1945():33-42. PubMed ID: 30945241 [TBL] [Abstract][Full Text] [Related]
6. Reduced-order modelling of biochemical networks: application to the GTPase-cycle signalling module. Maurya MR; Bornheimer SJ; Venkatasubramanian V; Subramaniam S Syst Biol (Stevenage); 2005 Dec; 152(4):229-42. PubMed ID: 16986265 [TBL] [Abstract][Full Text] [Related]
7. RuleBender: integrated modeling, simulation and visualization for rule-based intracellular biochemistry. Smith AM; Xu W; Sun Y; Faeder JR; Marai GE BMC Bioinformatics; 2012; 13 Suppl 8(Suppl 8):S3. PubMed ID: 22607382 [TBL] [Abstract][Full Text] [Related]
8. Rule-based modelling and simulation of biochemical systems with molecular finite automata. Yang J; Meng X; Hlavacek WS IET Syst Biol; 2010 Nov; 4(6):453-66. PubMed ID: 21073243 [TBL] [Abstract][Full Text] [Related]
9. Executable biochemical space for specification and analysis of biochemical systems. Troják M; Šafránek D; Mertová L; Brim L PLoS One; 2020; 15(9):e0238838. PubMed ID: 32915842 [TBL] [Abstract][Full Text] [Related]
10. Petri nets in Snoopy: a unifying framework for the graphical display, computational modelling, and simulation of bacterial regulatory networks. Marwan W; Rohr C; Heiner M Methods Mol Biol; 2012; 804():409-37. PubMed ID: 22144165 [TBL] [Abstract][Full Text] [Related]
11. Modelling gene expression control using P systems: The Lac Operon, a case study. Romero-Campero FJ; Pérez-Jiménez MJ Biosystems; 2008 Mar; 91(3):438-57. PubMed ID: 17822838 [TBL] [Abstract][Full Text] [Related]
12. BioBayes: a software package for Bayesian inference in systems biology. Vyshemirsky V; Girolami M Bioinformatics; 2008 Sep; 24(17):1933-4. PubMed ID: 18632751 [TBL] [Abstract][Full Text] [Related]
13. MONALISA for stochastic simulations of Petri net models of biochemical systems. Balazki P; Lindauer K; Einloft J; Ackermann J; Koch I BMC Bioinformatics; 2015 Jul; 16():215. PubMed ID: 26156221 [TBL] [Abstract][Full Text] [Related]
14. MOSBIE: a tool for comparison and analysis of rule-based biochemical models. Wenskovitch JE; Harris LA; Tapia JJ; Faeder JR; Marai GE BMC Bioinformatics; 2014 Sep; 15(1):316. PubMed ID: 25253680 [TBL] [Abstract][Full Text] [Related]
15. Stochastic P systems and the simulation of biochemical processes with dynamic compartments. Spicher A; Michel O; Cieslak M; Giavitto JL; Prusinkiewicz P Biosystems; 2008 Mar; 91(3):458-72. PubMed ID: 17728055 [TBL] [Abstract][Full Text] [Related]
16. The Beta Workbench: a computational tool to study the dynamics of biological systems. Dematté L; Priami C; Romanel A Brief Bioinform; 2008 Sep; 9(5):437-49. PubMed ID: 18463130 [TBL] [Abstract][Full Text] [Related]