Preface: Petri nets for systems and synthetic biology

Natural Computing

Volumn 10, Issue 3, 2011, Pages 987-992

  Heiner, Monika ^a  

^a BRANDENBURG UNIVERSITY OF TECHNOLOGY   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

ANALYTIC METHOD; APOPTOSIS; CONTINUOUS PETRI NET; HIDDEN MARKOV MODEL; KINETICS; MATHEMATICAL ANALYSIS; MATHEMATICAL MODEL; MOLECULAR DYNAMICS; MOLECULAR EVOLUTION; PETRI NET; REVIEW; SEMANTICS; STATISTICS; STOCHASTIC PETRI NET; SYNTHETIC BIOLOGY; SYSTEM ANALYSIS; SYSTEMS BIOLOGY;

EID: 80054966651     PISSN: 15677818     EISSN: 15729796     Source Type: Journal    
DOI: 10.1007/s11047-011-9263-z     Document Type: Review

References (14)

1. Ajmone Marsan M, Balbo G, Conte G, Donatelli S, Franceschinis G (1995) Modelling with generalized stochastic Petri nets. Wiley series in parallel computing, 2nd edn. Wiley, New York
2. Baldan P, Cocco N, Marin A, Simeoni M (2010) Petri nets for modelling metabolic pathways: a survey. J Nat Comput 9(4):955-989
3. Chaouiya C (2007) Petri net modelling of biological networks. Briefings Bioinform 8(4):210-219 (Pubitemid 47336806)
4. David R, Alla H (2005) Discrete, continuous, and hybrid Petri nets. Springer, Berlin
5. Doi A, Drath R, Nagaska M, Matsuno H, Miyano S (1999) Protein dynamics observations of lambda-phage by hybrid Petri net. Genome Inform 10:217-218
6. Gilbert D, Heiner M, Lehrack S (2007) A unifying framework for modelling and analysing biochemical pathways using Petri nets. In: Proceedings of the CMSB. LNCS/LNBI 4695, Springer, Heidelberg, pp 200-216
7. Heiner M, Gilbert D (2011) How Might Petri Nets Enhance Your Systems Biology Toolkit. In: Proceedings of the PETRI NETS 2011. LNCS, vol 6709 . Springer, Heidelberg, pp 17-37
8. Heiner M, Gilbert D, Donaldson R (2008) Petri nets in systems and synthetic biology. In: Schools on formal methods (SFM). LNCS, vol 5016, Springer, Heidelberg, pp 215-264
9. Heiner M, Lehrack S, Gilbert D, Marwan W (2009a) Extended stochastic Petri nets for model-based design of wetlab experiments. In: Transactions on computational systems biology XI, LNCS. Springer, Heidelberg, pp 138-163
10. Heiner M, Schwarick M, Tovchigrechko A (2009b) DSSZ-MC-a tool for symbolic analysis of extended Petri nets. In: Proceedings of the PETRI NETS 2009. LNCS, vol 5606. Springer, Heidelberg, pp 323-332
11. Herajy M, Heiner M (2010) Hybrid Petri nets for modelling of hybrid biochemical interactions. In: Proceedings of the 17th German workshop on algorithms and tools for Petri nets (AWPN 2010). CEUR workshop proceedings, vol 643. http://www.CEUR-WS.org, pp 66-79
12. Merlin PM (1974) A study of the recoverability of computing systems. University of California, Irvine. PhD Thesis, 1974. Available from University Microfilms, Ann Arbor, No. 75-11026
13. Soliman S, Heiner M (2010) A unique transformation from ordinary differential equations to reaction networks. PLoS ONE 5(12):e14284
14. Valk R (1978) Self-modifying nets, a natural extension of Petri nets. In: Automata, languages and programming. LNCS, vol 62. Springer, Heidelberg, pp 464-476