22853 Paolo Baldan/Nicoletta Cocco/Andrea Marin/Marta Simeoni: Petri nets
for modelling metabolic pathways - a survey. Internet ca. 2008, 39p.

18728 Atsushi Doi/.../Satoru Miyano: A combined pathway to simulate
CDK-dependent phosphorylation and ARF-dependent stabilization for
p53 transcriptional activity. Genome Informatics 17/1 (2006), 112-123.

18725 Sachie Fujita/Mika Matsui/Hiroshi Matsuno/Satoru Miyano: Modeling
and simulation of fission yeast cell cycle on hybrid functional
Petri net. Internet 2003, 10p.

18801 Julien Gagneur/David Jackson/Georg Casari: Hierarchical analysis of
dependency in metabolic networks. Bioinformatics 19/8 (2003), 1027-1034.

18729 David Gilbert/Monika Heiner: From Petri nets to differential
equations. An integrative approach for biochemical network analysis.
Internet ca. 2006, 42p.

18737 Peter Goss/Jean Peccoud: Quantitative modeling of stochastic systems
in molecular biology by using stochastic Petri nets.
Proc. Nat. Ac. Sci. USA 95 (1998), 6750-6755.

18805 Daniel Hanisch/Alexander Zien/Ralf Zimmer/Thomas Lengauer:
Co-clustering of biological networks and gene expression data.
Bioinformatics 18/1 (2002), S145-S154.

18717 Monika Heiner: Modelling of biochemical networks with time
Petri nets. HU Berlin 2005, 80p.

18710 Monika Heiner: Pathway analysis of biochemical networks with
Petri nets. Internet 2006, 11p.

18718 Monika Heiner: Systems biology - a Petri net perspective.
What have technical and natural systems in common?
Ilmenau July 2006, 107p.

18712 Monika Heiner: Mathematical modelling of biochemical networks
with Petri nets. FMP Berlin February 2007, 15p.

18709 Monika Heiner/Ina Koch: Petri nets as partial order semantics
for biological networks. ECMTB July 2005, 43p.

22096 Franziska Hinkelmann/.../Reinhard Laubenbacher: ADAM -
analysis of discrete models of biological systems using computer
algebra. Internet 2011, 22p.

18743 Ralf Hofestädt: Petri nets and the simulation of metabolic
networks. In Silico Biol. 3 (2003), 2p.

18727 Ina Koch/Monika Heiner: Qualitative modelling and analysis of
biochemical pathways with Petri nets. Internet 2004, 52p.

18715 Ina Koch/Björn Junker/Monika Heiner: Application of Petri net
theory for modelling and validation of the sucrose breakdown pathway
in the potato tuber. Bioinformatics 21/7 (2005), 1219-1226.

21910 Ina Koch/Wolfgang Reisig/Falk Schreiber (ed.): Modeling
in systems biology. The Petri net approach.
Springer 2011, 360p. Eur 113.

18803 Robert Küffner/Ralf Zimmer/Thomas Lengauer: Pathway analysis in
metabolic databases via differential metabolic dispaly (DMD).
Bioinformatics 16/9 (2000), 825-836.

20463 Stefano Lanzeni/Enza Messina/Francesco Archetti: Graph models
and mathematical programming in biochemical network analysis and
metabolic engineering design. Computers Math. Appl. 55 (2008), 970-983.

18732 Dong-yup Lee/Ralf Zimmer/Sang-yup Lee Sun-won Park: Colored Petri
net modeling and simulation of signal transduction pathways.
Metabolic Eng. 8 (2006), 112-122.

20610 Sebastian Lehrack: Ein Werkzeug zur Modellierung und Simulation
von stochastischen Petrinetzen im Kontext biochemischer Netzwerke.
Diplomarbeit Univ. Cottbus 2007, 111p.

18714 Chen Li/.../Satoru Miyano: Modelling and simulation of signal
transductions in an apoptosis pathway by using timed Petri nets.
J. Biosci. 32/1 (2007), 113-127.

18836 Johannes Mandel/Hendrik Fuß/Niall Palfreyman/Werner Dubitzky:
Modeling biochemical transformation processes and information processing
with Narrator. BMC Bioinformatics 8 (2007), 17p.

18726 Mika Matsui/.../Satoru Miyano: Xenopus cell cycle pathways for
simulating cell division processes by genomic object net.
Genome Informatics 14 (2003), 615-616.

18731 Mika Matsui/.../Satoru Miyano: Simulated cell division processes
of the Xenopus cell cycle pathway by genomic object net.
J. Integrative Bioinform. ... (2004), 11p.

18733 Michael Mayo: Learning Petri net models of non-linear gene
interactions. Biosystems 82 (2005), 74-82.

18730 Satoru Miyano/Hiroshi Matsuno: How to model and simulate biological
pathways with Petri nets - a new challenge for systems biology.
Internet 2004, 31p.

18734 Jason Moore/Lance Hahn: Petri net modeling of high-order genetic
systems using grammatical evolution. Biosystems 72 (2003), 177-186.

18849 Masao Nagasaki/Atsushi Doi/Hiroshi Matsuno/Satoru Miyano: A versatile
Petri net based architecture for modeling and simulation of complex
biological processes. Genome Informatics 15/1 (2004), 180-197.

20608 Masao Nagasaki/Atsushi Doi/Hiroshi Matsuno/Satoru Miyano: Genomic Object
Net - 1. A platform for modelling and simulating biopathways.
Appl. Bioinf. 2 (2004), 181-184.

18713 Masao Nagasaki/Atsushi Doi/Hiroshi Matsuno/Satoru Miyano: Petri net
based description and modeling of biological pathways.
Algebraic Biology 2005, 19-31.

20324 Gerry Neumann: Modellierung biochemischer Abläufe mit Petri-Netzen.
Hämostase vs. Fibrinolyse vs. Inhibitoren. Diplomarbeit TU Cottbus 2004, 145p.

18848 Mor Peleg/Daniel Rubin/Russ Altman: Using Petri net tools to study
properties and dynamics of biological systems.
J. Am. Med. Inf. Ass. 12/2 (2005), 181-199.

18802 Mor Peleg/Iwei Yeh/Russ Altman: Modelling biological processes using
workflow and Petri net models. Bioinformatics 18/6 (2002), 825-837.

20322 Venkatramana Reddy/Michael Liebman/Michael Mavrovouniotis: Qualitative
analysis of biochemical reaction systems. Comp. Biol. Med. 26/1 (1996), 9-24.

18708 Thomas Runge: Applications of coloured Petri nets in
systems biology. Internet 2004, 20p.

18768 Thomas Runge: Methodik zur Modellierung und Validierung von
biochemischen Netzwerken mit gefärbten Petrinetzen, dargestellt am
Beispiel der Glykolyse. Diplomarbeit TU Cottbus 2004, 146p.

20300 Derek Ruths/.../Prahlad Ram: The signaling Petri net-based simulator -
a non-parametric strategy for characterizing the dynamics of cell-specific
signaling networks. PLOS Comp. Biol. 4/2 (2008), 15p.

18648 Andrea Sackmann/Monika Heiner/Ina Koch: Application of Petri net
based analysis techniques to signal transduction pathways.
BMC Bioinformatics 7 (2006), 17p.

18850 Ayumu Saito/.../Satoru Miyano: Cell fate simulation model of gustatory
neurons with microRNAs double-negative feedback loop by hybrid functional
Petri net with extension. Genome Informatics 17/1 (2006), 100-111.

18720 Oliver Shaw/Albert Koelmans/Jason Steggles/Anil Wipat: Applying
Petri nets to systems biology using XML technologies.
Univ. Newcastle upon Tyne 2004, 39p.

18800 Allan Sioson: Multimodal networks in biology.
Ph.D. thesis Virginia Polytech. 2005, 312p.

18716 N. Srinivasan/R. Sowdhamini/Alok Bhattacharya: Computational
biology - more than just a set of techniques. J. Biosco. 32/1 (2007), 1-2.

18721 L. Steggles/R. Banks/A. Wipat: Modelling and analysing genetic
networks - from boolean networks to Petri nets.
Univ. Newcastle upon Tyne 2006, 18p.

18741 Sylvie Troncale/.../Janine Guespin: Modeling and simulation with
hybrid functional Petri nets of the role of interleukin-6 in human
early haematopoiesis. Internet 2006, 12p.

18723 Ranjith Vasireddy/Somenath Biswas: Modeling gene regulatory network
in fission yeast cell cycle using hybrid Petri nets.
Internet ca. 2004, 6p.

25701 Alan Veliz-Cuba/Abdul Salam Jarrah/Reinhard Laubenbacher: Polynomial algebra
of discrete models in systems biology. Bioinformatics 26/13 (2010), 1637-1643.

18707 Jürgen Will/Monika Heiner: Petri nets in biology, chemistry,
and medicine. A bibliography. TU Cottbus 2002, 39p.

18745 Ionela Zevedei/Stefan Schuster: Topological analysis of metabolic
networks based on Petri net theory. In Silico Biol. 3 (2003), 17p.

18776 ZZ: Metabolische Netzwerke. TU Cottbus ca. 2002, 10p.