TY - CHAP A1 - George, Sandra A1 - Noack, Monika A1 - Vanek, Monika A1 - Rentzsch, Juliane A1 - Röber, Nadja A1 - Conrad, Karsten A1 - Roggenbuck, Dirk A1 - Küpper, Jan-Heiner T1 - Expression of nicotinic acetylcholine receptor subunits in HEp-2 cells for immunodetection of autoantibody specificities in sera from Myasthenia gravis patients T2 - From autoantibody research to standardized diagnostic assays in the management of human diseases, report on the 12th Dresden Symposium on Autoantibodies, September 23-26, 2015 Y1 - 2015 SN - 978-3-95853-104-8 SP - 195 EP - 196 PB - Pabst Science Publishers CY - Lengerich ER - TY - RPRT A1 - Will, Jürgen A1 - Heiner, Monika T1 - Petri nets in biology, chemistry, and medicine : bibliography KW - Petri-Netz KW - Naturwissenschaften Y1 - 2002 PB - BTU, Inst. of Computer Science CY - Cottbus ER - TY - CHAP A1 - Heiner, Monika A1 - Heisel, Maritta A1 - Hatebur, Denis A1 - Rottke, Thomas ED - Anderson, Stuart T1 - A Problem-Oriented Approach to common Criteria Certification T2 - Computer safety, reliability and security, 21st international conference, SAFECOMP 2002, Catania, Italy, September 10 - 13, 2002 N2 - Abstract. There is an increasing demand to certify the security of systems according to the Common Criteria (CC). The CC distinguish several evaluation assurance levels (EALs), level EAL7 being the highest and requiring the application of formal techniques. We present a method for requirements engineering an (semi-formal and formal) modeling of systems to be certified according to the higher evaluation assurance levels of the CC. The method is problem oriented, i.e. it is driven by the environment in which the system will operate and by a mission statement. We illustrate our approach by an industrial case study, namely an electronic purse card (EPC) to be implemented on a Java Smart Card. As a novelty, we treat the mutual asymmetric authentication of the card an the terminal into which the card is inserted. Y1 - 2002 SN - 3-540-44157-3 SP - 334 EP - 346 PB - Springer CY - Berlin [u.a.] ER - TY - JOUR A1 - Heiner, Monika A1 - Koch, Ina A1 - Voss, Klaus T1 - Analysis and Simulation of Steady States in Metabolic Pathways with Petri Nets, Proc. Y1 - 2001 ER - TY - GEN A1 - Heiner, Monika A1 - Mertke, Thomas A1 - Deussen, Peter H. T1 - A Safety-Oriented Technical Language for the Requirement Specification in Control Engineering (Eine Sicherheitsfachsprache zur Formulierung steuerungstechnischer Anforderungen); in German Y1 - 2001 ER - TY - CHAP A1 - Mertke, Thomas A1 - Deussen, Peter H. A1 - Heiner, Monika T1 - Eine anwenderorientierte Sicherheitsfachsprache zur Verifikation von Steuerungsprogrammen Y1 - 2001 ER - TY - CHAP A1 - Heiner, Monika T1 - Understanding Network Behavior by Structured Representations of Transition Invariants KW - Petri Nets Y1 - 2009 UR - http://www.springerlink.com/content/m8t30720r141442m ER - TY - GEN A1 - Gilbert, David A1 - Breitling, Rainer A1 - Heiner, Monika A1 - Donaldson, Robin T1 - An Introduction to BioModel Engineering, Illustrated for Signal Transduction Pathways KW - Petri Nets Y1 - 2009 ER - TY - CHAP A1 - Heiner, Monika A1 - Schwarick, Martin A1 - Tovchigrechko, Alexey A. T1 - DSSZ-MC - A Tool for Symbolic Analysis of Extended Petri Nets KW - Petri Nets Y1 - 2009 ER - TY - CHAP A1 - Heiner, Monika A1 - Schwarick, Martin T1 - CSL model checking of biochemical networks with Interval Decision Diagrams KW - Petri Nets Y1 - 2009 UR - http://www.springerlink.com/content/n11g5021770h8k88/ ER - TY - CHAP A1 - Heiner, Monika A1 - Breitling, Rainer A1 - Gilbert, David A1 - Priami, C. T1 - Formal Methods in Molecular Biology KW - Petri Nets Y1 - 2009 UR - http://drops.dagstuhl.de/portals/index.php?semnr=09091 ER - TY - CHAP A1 - Lehrack, Sebastian A1 - Gilbert, David A1 - Heiner, Monika T1 - A Unifying Framework for Modelling and Analysing Biochemical Pathways Using Petri Nets Y1 - 2007 ER - TY - CHAP A1 - Heiner, Monika A1 - Donaldson, Robin A1 - Gilbert, David ED - Iyengar, M. Sriram T1 - Petri Nets for Systems Biology T2 - Symbolic systems biology Y1 - 2009 UR - http://www.jblearning.com/catalog/9780763753702/ SN - 978-0-7637-5370-2 PB - Jones and Bartlett Learning CY - Sudbury, Mass. [u.a.] ER - TY - CHAP A1 - Heiner, Monika A1 - Gilbert, David A1 - Breitling, Rainer A1 - Orton, Richard T1 - Computation modelling of kinase signalling cascades Y1 - 2010 UR - http://www.springerlink.com/content/w737003v17214214/#section=761974%26page=1 ER - TY - CHAP A1 - Heiner, Monika A1 - Gilbert, David T1 - How Might Petri Nets Enhance Your Systems Biology Toolkit Y1 - 2011 UR - http://www.springerlink.com/content/t21n70p613h75m64/ ER - TY - CHAP A1 - Heiner, Monika A1 - Marwan, Wolfgang A1 - Rohr, Christian T1 - Petri nets in Snoopy: A unifying framework for the graphical display, computational modelling, and simulation of bacterial regulatory networks Y1 - 2012 UR - http://www.springerlink.com/content/978-1-61779-361-5 ER - TY - CHAP A1 - Heiner, Monika A1 - Gilbert, David A1 - Donaldson, Robin T1 - Petri Nets for Systems and Synthetic Biology Y1 - 2008 UR - http://www.springerlink.com/content/j115442q6518j330/ ER - TY - CHAP A1 - Heiner, Monika T1 - Understanding Network Behaviour by Structured Representations of Transition Invariants - A Petri Net Perspective on Systems and Synthetic Biology Y1 - 2009 UR - http://www.springerlink.com/content/m8t30720r141442m ER - TY - CHAP A1 - Heiner, Monika A1 - Koch, Ina T1 - Petri Nets Y1 - 2008 UR - http://www.amazon.com/Analysis-Biological-Networks-Wiley-Bioinformatics/dp/0470041447/ref=sr_1_1?ie=UTF8%26s=books%26qid=1195812618%26sr=8-1 ER - TY - GEN A1 - Heiner, Monika A1 - Yang, Ming A1 - Liu, Fei T1 - Modeling and analyzing biological systems using colored hierarchical Petri nets illustrated by C. elegans vulval development T2 - Journal of Biological Systems Y1 - 2014 U6 - https://doi.org/10.1142/S0218339014500181 SN - 1793-6470 VL - 22 IS - 3 SP - 463 EP - 493 ER - TY - GEN A1 - Herajy, Mostafa A1 - Heiner, Monika T1 - Petri Net-Based Collaborative Simulation and Steering of Biochemical Reaction Networks T2 - Fundamenta Informaticae Y1 - 2014 UR - http://iospress.metapress.com/content/y8760m2p02256uw3 SN - 0169-2968 VL - 129 IS - 1-2 SP - 49 EP - 67 ER - TY - GEN A1 - Blätke, Mary-Ann A1 - Dittrich, Anna A1 - Rohr, Christian A1 - Heiner, Monika A1 - Schaper, Fred A1 - Marwan, Wolfgang T1 - JAK/STAT signalling - an executable model assembled from molecule-centred modules demonstrating a module-oriented database concept for systems and synthetic biology T2 - Molecular BioSystems Y1 - 2013 U6 - https://doi.org/10.1039/C3MB25593J SN - 1742-2051 VL - 9 IS - 6 SP - 1290 EP - 1307 ER - TY - CHAP A1 - Heiner, Monika A1 - Lehrack, Sebastian A1 - Gilbert, David A1 - Marwan, Wolfgang T1 - Extended Stochastic Petri Nets for Model-based Design of Wetlab Experiments T2 - Transactions on Computational Systems Biology XI Y1 - 2009 UR - http://www.springerlink.com/content/5u8h68411657x827/?p=e806216818924093ad3bc526c8b3604d&pi=0 SN - 978-3-642-04185-3 SP - 138 EP - 163 PB - Springer CY - Berlin [u.a.] ER - TY - GEN A1 - Grafahrend-Belau, Eva A1 - Schreiber, Falk A1 - Heiner, Monika A1 - Sackmann, Andrea A1 - Junker, Björn H. A1 - Grunwald, Stefanie A1 - Speer, Astrid A1 - Winder, Katja A1 - Koch, Ina T1 - Modularization of biochemical networks based on classification of Petri net T-invariants T2 - BMC Bioinformatics Y1 - 2008 U6 - https://doi.org/10.1186/1471-2105-9-90 SN - 1471-2105 VL - Vol. 9 ER - TY - GEN A1 - Breitling, Rainer A1 - Gilbert, David A1 - Heiner, Monika A1 - Orton, Richard T1 - A structured approach for the engineering of biochemical network models, illustrated for signalling pathways T2 - Briefings in Bioinformatics Y1 - 2008 U6 - https://doi.org/10.1093/bib/bbn026 SN - 1477-4054 VL - 9 IS - 5 SP - 404 EP - 421 ER - TY - GEN A1 - Sackmann, Andrea A1 - Heiner, Monika A1 - Koch, Ina T1 - Application of Petri net based analysis techniques to signal transduction pathways T2 - BMC Bioinformatics Y1 - 2006 U6 - https://doi.org/10.1186/1471-2105-7-482 SN - 1471-2105 VL - Vol. 7 ER - TY - GEN A1 - Popova-Zeugmann, Louchka A1 - Heiner, Monika A1 - Koch, Ina T1 - Time Petri Nets for Modelling and Analysis of Biochemical Networks T2 - Fundamenta Informaticae Y1 - 2005 UR - http://iospress.metapress.com/content/84vabcc0venbcgwv/ SN - 1875-8681 VL - 67 IS - 1-3 SP - 149 EP - 162 ER - TY - GEN A1 - Koch, Ina A1 - Junker, Björn H. A1 - Heiner, Monika T1 - Application of Petri Net Theory for Modelling and Validation of the Sucrose Breakdown Pathway in the Potato Tuber T2 - Bioinformatics Y1 - 2005 UR - http://bioinformatics.oupjournals.org/cgi/content/abstract/bti145?ijkey=58saZCDV5w9LY&keytype=ref SN - 1460-2059 VL - 21 IS - 7 SP - 1219 EP - 1226 ER - TY - GEN A1 - Koch, Ina A1 - Schüler, Markus A1 - Heiner, Monika T1 - STEPP - Search Tool for Exploration of Petri net Paths: A new tool for Petri net-based path analysis in biochemical networks T2 - In silico biology Y1 - 2004 UR - http://www.bioinfo.de/isb/2004/05/0014/ SN - 1434-3207 VL - Vol. 5 ER - TY - GEN A1 - Heiner, Monika A1 - Koch, Ina A1 - Will, Jürgen T1 - Model Validation of Biological Pathways Using Petri Nets - Demonstrated for Apoptosis T2 - BioSystems Y1 - 2004 U6 - https://doi.org/10.1016/j.biosystems.2004.03.003 VL - 75 IS - 1-3 SP - 15 EP - 28 ER - TY - GEN A1 - Voss, Klaus A1 - Heiner, Monika A1 - Koch, Ina T1 - Steady State Analysis of Metabolic Pathways Using Petri Nets T2 - In silico biology Y1 - 2003 UR - http://www.bioinfo.de/isb/2003/03/0031/ SN - 1434-3207 VL - Vol. 3 ER - TY - GEN A1 - Heiner, Monika A1 - Gilbert, David T1 - BioModel Engineering for Multiscale Systems Biology T2 - Progress in Biophysics and Molecular Biology Y1 - 2013 UR - http://www.sciencedirect.com/science/article/pii/S0079610712001071?v=s5 U6 - https://doi.org/10.1016/j.pbiomolbio.2012.10.001 SN - 1873-1732 VL - 111 IS - 2-3 SP - 119 EP - 128 ER - TY - GEN A1 - Liu, Fei A1 - Heiner, Monika T1 - Modeling membrane systems using colored stochastic Petri nets T2 - Natural Computing Y1 - 2013 U6 - https://doi.org/10.1007/s11047-013-9367-8 SN - 1572-9796 VL - 12 IS - 4 SP - 617 EP - 629 ER - TY - CHAP A1 - Herajy, Mostafa A1 - Schwarick, Martin A1 - Heiner, Monika T1 - Hybrid Petri Nets for Modelling the Eukaryotic Cell Cycle T2 - Transactions on petri nets and other models of concurrency VIII Y1 - 2013 SN - 978-3-642-40464-1 SN - 978-3-642-40465-8 U6 - https://doi.org/10.1007/978-3-642-40465-8_7 N1 - referiert SP - 123 EP - 141 PB - Springer CY - Berlin [u.a.] ER - TY - GEN A1 - Liu, Fei A1 - Heiner, Monika T1 - Multiscale modelling of coupled Ca2+ channels using coloured stochastic Petri nets T2 - IET Systems Biology Y1 - 2013 SN - 1751-8849 VL - 7 IS - 4 SP - 106 EP - 113 ER - TY - GEN A1 - Herajy, Mostafa A1 - Heiner, Monika T1 - Hybrid Representation and Simulation of Stiff Biochemical Networks T2 - Nonlinear Analysis: Hybrid Systems Y1 - 2012 UR - http://www.sciencedirect.com/science/article/pii/S1751570X12000192 SN - 1751-570X VL - 6 IS - 4 SP - 942 EP - 959 ER - TY - CHAP A1 - Heiner, Monika A1 - Breitling, Rainer A1 - Donaldson, Robin A1 - Gilbert, David T1 - Biomodel Engineering - From Structure to Behavior T2 - Transactions on Computational Systems Biology XII : Special Issue on Modeling Methodologies Y1 - 2010 SN - 978-3-642-11711-4 SN - 978-3-642-11712-1 U6 - https://doi.org/10.1007/978-3-642-11712-1 SP - 1 EP - 12 PB - Springer CY - Berlin [u.a.] ER - TY - GEN A1 - Heiner, Monika A1 - Sriram, K. T1 - Structural Analysis to Determine the Core of Hypoxia Response Network T2 - PLoS ONE Y1 - 2010 U6 - https://doi.org/10.1371/journal.pone.0008600 SN - 1932-6203 VL - 5 IS - 1 ER - TY - GEN A1 - Rohr, Christian A1 - Marwan, Wolfgang A1 - Heiner, Monika T1 - Snoopy - a unifying Petri net framework to investigate biomolecular networks T2 - Bioinformatics Y1 - 2010 UR - http://bioinformatics.oxfordjournals.org/cgi/content/abstract/26/7/974?ct=ct SN - 1460-2059 VL - 26 IS - 7 SP - 974 EP - 975 ER - TY - GEN A1 - Heiner, Monika A1 - Soliman, Sylvain T1 - A Unique Transformation from Ordinary Differential Equations to Reaction Networks T2 - PLoS one Y1 - 2010 U6 - https://doi.org/10.1371/journal.pone.0014284 SN - 1932-6203 VL - 5 IS - 12 ER - TY - GEN A1 - Heiner, Monika A1 - Ventre, Giorgio A1 - Wikarski, Dietmar T1 - A Petri Net Based Methodology to Integrate Qaulitative and Quantitative Analysis T2 - Information and Software Technology Y1 - 1994 U6 - https://doi.org/10.1016/0950-5849(94)90066-3 SN - 0950-5849 VL - 36 IS - 7 SP - 435 EP - 441 ER - TY - CHAP A1 - Barbot, Benoit A1 - Haddad, Serge A1 - Heiner, Monika A1 - Picaronny, Claudine T1 - Rare Event Handling in Signalling Cascades T2 - Proceedings, SIMUL 2014, Sixth International Conference on Advances in System Simulation Y1 - 2014 UR - http://www.thinkmind.org/index.php?view=instance&instance=SIMUL+2014 SN - 978-1-61208-371-1 N1 - ThinkMind Digital Library SP - 126 EP - 131 PB - IARIA ER - TY - CHAP A1 - Herajy, Mostafa A1 - Heiner, Monika ED - Ciardo, Gianfranco ED - Kindler, Ekkart T1 - A Steering Server for Collaborative Simulation of Quantitative Petri Nets T2 - Application and Theory of Petri Nets and Concurrency, 35th International Conference, PETRI NETS 2014, Tunis, Tunisia, June 23-27, 2014, Proceedings Y1 - 2014 UR - http://link.springer.com/chapter/10.1007%2F978-3-319-07734-5_21 SN - 978-3-319-07733-8 SP - 374 EP - 384 PB - Springer CY - Cham [u.a.] ER - TY - CHAP A1 - Heiner, Monika A1 - Rohr, Christian A1 - Schwarick, Martin ED - Colom, José-Manuel ED - Desel, Jörg T1 - MARCIE - Model checking and Reachability analysis done effieciently T2 - Application and theory of petri nets and concurrency, 34th international conference, proceedings, PETRI NETS 2013, Milan, Italy, June 24 - 28, 2013 Y1 - 2013 UR - http://link.springer.com/chapter/10.1007/978-3-642-38697-8_21 SN - 978-3-642-38696-1 N1 - referiert SP - 389 EP - 399 PB - Springer CY - Heidelberg [u.a.] ER - TY - CHAP A1 - Liu, Fei A1 - Heiner, Monika T1 - Coloured Petri Nets to Model and simulate Biological Systems T2 - Proceedings of the Workshops of the 31st International Conference on Application and Theory of Petri Nets and Other Models of Concurrency (PETRI NETS 2010) Y1 - 2010 UR - http://ceur-ws.org/Vol-827 SP - 70 EP - 84 ER - TY - CHAP A1 - Heiner, Monika A1 - Rohr, Christian A1 - Schwarick, Martin A1 - Streif, Stefan ED - Quaglia, Paola T1 - A Comparative Study of Stochastic Analysis Techniques T2 - CMSB '10, 8th Conference on Computational Methods in Systems Biology, Trento, Italy — September 29 - October 01, 2010 Y1 - 2010 SN - 978-1-4503-0068-1 U6 - https://doi.org/10.1145/1839764.1839776 SP - 96 EP - 106 PB - ACM CY - New York, NY ER - TY - CHAP A1 - Blätke, Mary-Ann A1 - Heiner, Monika A1 - Marwan, Wolfgang ED - Robeva, Raina S. T1 - BioModel Engineering with Petri Nets T2 - Algebraic and Discrete Mathematical Methods for Modern Biology Y1 - 2015 UR - http://store.elsevier.com/product.jsp?isbn=9780128012130 SN - 978-0-12-801213-0 SP - 141 EP - 193 PB - Elsevier CY - Amsterdam [u.a.] ER - TY - CHAP A1 - Blätke, Mary-Ann A1 - Rohr, Christian A1 - Heiner, Monika A1 - Marwan, Wolfgang ED - Benner, Peter T1 - A Petri Net based Framework for Biomodel Engineering T2 - Large-Scale Networks in Engineering and Life Sciences KW - Automatic network reconstruction KW - Biomodel engineering KW - Dynamic systems modelling KW - Modular modelling KW - Petri nets KW - Molecular regulatory networks KW - Reverse engineering Y1 - 2014 SN - 978-3-319-08436-7 U6 - https://doi.org/10.1007/978-3-319-08437-4_6 SP - 317 EP - 366 PB - Springer CY - Heidelberg ER - TY - CHAP A1 - Liu, Fei A1 - Heiner, Monika ED - Chen, Ming ED - Hofestädt, Ralf T1 - Petri Nets for Modeling and Analyzing Biochemical Reaction Networks T2 - Approaches in Integrative Bioinformatics KW - Petri nets KW - Biochemical reaction networks KW - Unifying Petri net frame- work KW - Qualitative KW - Stochastic KW - Conti nuous and hybrid Petri nets KW - Colored Petri nets KW - Repressilator Y1 - 2014 SN - 978-3-642-41280-6 SN - 978-3-642-41281-3 U6 - https://doi.org/10.1007/978-3-642-41281-3_9 SP - 245 EP - 272 PB - Springer CY - Heidelberg ER - TY - GEN A1 - Liu, Fei A1 - Heiner, Monika A1 - Yang, Ming T1 - Representing Network Reconstruction Solutions with Colored Petri Nets T2 - Neurocomputing Y1 - 2016 UR - http://www.sciencedirect.com/science/article/pii/S0925231215012473 U6 - https://doi.org/10.1016/j.neucom.2015.04.112 SN - 0925-2312 VL - 174 IS - A SP - 483 EP - 493 ER - TY - GEN A1 - Somekh, Judith A1 - Peleg, Mor A1 - Eran, Alal A1 - Koren, Itay A1 - Feiglin, Ariel A1 - Demishtein, Alik A1 - Shiloh, Ruth A1 - Heiner, Monika A1 - Kong, Sek Won A1 - Elazar, Zvulun A1 - Kohane, Isaac T1 - A Model-driven methodology for exploring complex disease comorbidities applied to autism spectrum disorder and inflammatory bowel disease T2 - Biomedical Informatics Y1 - 2016 U6 - https://doi.org/10.1016/j.jbi.2016.08.008 SN - 1532-0464 VL - 63 SP - 366 EP - 378 ER - TY - GEN A1 - Bertens, Laura M. F. A1 - Kleijn, Jetty A1 - Hille, Sander C. A1 - Heiner, Monika A1 - Koutny, Maciej A1 - Verbeek, Fons J. T1 - Modeling biological gradient formation: combining partial differential equations and Petri nets T2 - Natural Computing Y1 - 2016 UR - http://link.springer.com/article/10.1007/s11047-015-9531-4 U6 - https://doi.org/10.1007/s11047-015-9531-4 SN - 1567-7818 SN - 1572-9796 VL - 15 IS - 4 SP - 665 EP - 675 ER - TY - GEN A1 - Liu, Fei A1 - Heiner, Monika A1 - Yang, Ming T1 - Fuzzy stochastic Petri nets for modeling biological systems with uncertain kinetic parameters T2 - PLoS ONE Y1 - 2016 UR - http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0149674 U6 - https://doi.org/10.1371/journal.pone.0149674 SN - 1932-6203 VL - 11 IS - 2 SP - 0149674 ER - TY - CHAP A1 - Heiner, Monika A1 - Rohr, Christian A1 - Schwarick, Martin A1 - Tovchigrechko, Alexey A. ED - Koutny, Maciej ED - Desel, Jörg ED - Kleijn, Jetty T1 - MARCIE’s secrets of efficient model checking T2 - Transactions on petri nets and other models of concurrency XI Y1 - 2016 SN - 978-3-662-53400-7 SN - 978-3-662-53401-4 U6 - https://doi.org/10.1007/978-3-662-53401-4_14 N1 - referiert SP - 286 EP - 296 PB - Springer CY - Berlin [u.a.] ER - TY - GEN A1 - Pârvu, Ovidiu A1 - Gilbert, David A1 - Heiner, Monika A1 - Liu, Fei A1 - Saunders, Nigel A1 - Shaw, Simon T1 - Spatial-temporal modelling and analysis of bacterial colonies with phase variable genes T2 - ACM Transactions on Modeling and Computer Simulation (TOMACS) Y1 - 2015 UR - http://dl.acm.org/citation.cfm?id=2742546 U6 - https://doi.org/10.1145/2742546 SN - 1558-1195 SN - 1049-3301 VL - 25 IS - 2 SP - 13 ER - TY - GEN A1 - Barbot, Benoit A1 - Haddad, Serge A1 - Heiner, Monika A1 - Picaronny, Claudine T1 - A Rare Event Method Applied to Signalling Cascades T2 - International Journal on Advances in Systems and Measurements Y1 - 2015 UR - http://www.iariajournals.org/systems_and_measurements/sysmea_v8_n12_2015_paged.pdf SN - 1942-261x VL - 8 IS - 1-2 SP - 69 EP - 79 ER - TY - GEN A1 - Herajy, Mostafa A1 - Heiner, Monika T1 - Modeling and Simulation of Multi-scale Environmental Systems with Generalized Hybrid Petri Nets T2 - Frontiers in Environmental Science Y1 - 2015 UR - http://www.frontiersin.org/environmental_informatics/10.3389/fenvs.2015.00053/abstract U6 - https://doi.org/10.3389/fenvs.2015.00053 SN - 2296-665X VL - 3 SP - 53 ER - TY - GEN A1 - Liu, Fei A1 - Blätke, Mary-Ann A1 - Heiner, Monika A1 - Yang, Ming T1 - Modelling and simulating reaction–diffusion systems using coloured Petri nets T2 - Computers in Biology and Medicine Y1 - 2014 UR - http://www.sciencedirect.com/science/article/pii/S0010482514001693 U6 - https://doi.org/10.1016/j.compbiomed.2014.07.004 SN - 0010-4825 VL - 53 SP - 297 EP - 308 ER - TY - GEN A1 - Gao, Quian A1 - Gilbert, David A1 - Heiner, Monika A1 - Liu, Fei A1 - Maccagnola, Daniele A1 - Tree, David T1 - Multiscale Modelling and Analysis of Planar Cell Polarity in the Drosophila Wing T2 - IEEE/ACM Transactions on Computational Biology and Bioinformatics Y1 - 2013 U6 - https://doi.org/10.1109/TCBB.2012.101 SN - 1545-5963 VL - 10 IS - 2 SP - 337 EP - 351 ER - TY - CHAP A1 - Heiner, Monika A1 - Schwarick, Martin A1 - Wegener, Jan-Thierry T1 - Charlie – an extensible Petri net analysis tool T2 - Application and Theory of Petri Nets and Concurrency, 36th International Conference, PETRI NETS 2015, Brussels, Belgium, June 21-26, 2015, Proceedings Y1 - 2015 UR - http://link.springer.com/chapter/10.1007/978-3-319-19488-2_10 SN - 978-3-319-19487-5 U6 - https://doi.org/10.1007/978-3-319-19488-2_10 N1 - peer reviewed SP - 200 EP - 211 PB - Springer International Publishing CY - Cham ER - TY - GEN A1 - Gilbert, David A1 - Heiner, Monika T1 - Preface Advances in Computational Methods in Systems Biology T2 - Theoretical Computer Science Y1 - 2015 U6 - https://doi.org/doi:10.1016/j.tcs.2015.08.013 SN - 0304-3975 VL - 599 SP - 2 EP - 3 ER - TY - CHAP A1 - Herajy, Mostafa A1 - Heiner, Monika ED - Cinquemani, Eugenio ED - Donzé, Alexandre T1 - Accelerated Simulation of Hybrid Biological Models with Quasi-Disjoint Deterministic and Stochastic Subnets T2 - Hybrid Systems Biology, 5th International Workshop, HSB 2016, Grenoble, France, October 20-21, 2016, Proceedings Y1 - 2016 UR - http://link.springer.com/chapter/10.1007/978-3-319-47151-8_2 SN - 978-3-319-47150-1 SN - 978-3-319-47151-8 U6 - https://doi.org/10.1007/978-3-319-47151-8_2 N1 - referierte Konferenzveröffentlichung SP - 20 EP - 38 PB - Springer CY - Cham ER - TY - CHAP A1 - Parvu, Ovidiu A1 - Gilbert, David A1 - Heiner, Monika A1 - Liu, Fei A1 - Saunders, Nigel ED - Gupta, Ashutosh ED - Henzinger, Thomas A. T1 - Modelling and Analysis of Phase Variation in Bacterial Colony Growth T2 - Computational Methods in Systems Biology, 11th International Conference, CMSB 2013, Klosterneuburg, Austria, September 22-24, 2013 Y1 - 2013 SN - 978-3-642-40707-9 U6 - https://doi.org/10.1007/978-3-642-40708-6_7 N1 - referiert SP - 78 EP - 91 PB - Springer CY - Berlin [u.a.] ER - TY - CHAP A1 - Liu, Fei A1 - Heiner, Monika A1 - Yang, Ming T1 - Colored Petri Nets for Multiscale Systems Biology – Current Modeling and Analysis Capabilities in Snoopy T2 - 7th International Conference on Systems Biology (ISB), 2013, 23 - 25 Aug. 2013, Huangshan, China Y1 - 2013 SN - 978-1-4799-1387-9 U6 - https://doi.org/10.1109/ISB.2013.6623788 N1 - referiert SP - 24 EP - 30 PB - IEEE CY - Piscataway, NJ ER - TY - GEN A1 - George, Sandra A1 - Noack, M. A1 - Vanek, Monika A1 - Rentzsch, J. A1 - Röber, Nadja A1 - Roggenbuck, Dirk A1 - Conrad, Karsten A1 - Küpper, Jan-Heiner T1 - Expression of nicotinic acetylcholine receptor subunits in HEp-2 cells for immunodetection of autoantibody specificities in sera fro Myasthenia gravis patients T2 - Clinical Hemorheology and Microcirculation Y1 - 2015 U6 - https://doi.org/10.3233/CH-151999 SN - 1875-8622 SN - 1386-0291 VL - 61 IS - 2 SP - 385 EP - 396 ER - TY - CHAP A1 - Gilbert, David A1 - Heiner, Monika A1 - Liu, Fei A1 - Saunders, Nigel T1 - Colouring Space - A Coloured Framework for Spatial Modelling in Systems Biology T2 - Application and Theory of Petri Nets and Concurrency, 34th International Conference, PETRI NETS 2013, Milan, Italy, June 24-28, 2013 Y1 - 2013 UR - http://link.springer.com/chapter/10.1007%2F978-3-642-38697-8_13 N1 - referiert SP - 230 EP - 249 PB - Springer CY - Berlin [u.a.] ER - TY - GEN A1 - Heiner, Monika T1 - Petri Nets Research at BTU in Cottbus, Germany T2 - Petri Net Newsletter Y1 - 2014 SN - 0391-1804 SN - 0931-1084 VL - 83 SP - 19 EP - 25 ER - TY - GEN A1 - Herajy, Mostafa A1 - Liu, Fei A1 - Heiner, Monika T1 - Efficient modelling of yeast cell cycles based on multisite phosphorylation using coloured hybrid Petri nets with marking-dependent arc weights T2 - Nonlinear analysis: Hybrid systems Y1 - 2017 UR - https://www.sciencedirect.com/science/article/pii/S1751570X17300808 U6 - https://doi.org/10.1016/j.nahs.2017.09.002 SN - 1751-570X VL - 27 SP - 191 EP - 212 ER - TY - GEN A1 - Liu, Fei A1 - Heiner, Monika A1 - Gilbert, David T1 - Coloured Petri nets for multilevel, multiscale and multidimensional modelling of biological systems T2 - Briefings in Bioinformatics Y1 - 2019 U6 - https://doi.org/10.1093/bib/bbx150 SN - 1477-4054 SN - 1467-5463 VL - 20 IS - 3 SP - 877 EP - 886 ER - TY - GEN A1 - Gilbert, David A1 - Heiner, Monika A1 - Jayaweera, Yasoda A1 - Rohr, Christian T1 - Towards dynamic genome scale models T2 - Briefings in Bioinformatics Y1 - 2019 U6 - https://doi.org/10.1093/bib/bbx096 SN - 1477-4054 SN - 1467-5463 VL - 20 IS - 4 SP - 1167 EP - 1180 ER - TY - GEN A1 - Herajy, Mostafa A1 - Liu, Fei A1 - Rohr, Christian A1 - Heiner, Monika T1 - Snoopy’s hybrid simulator: a tool to construct and simulate hybrid biological models T2 - BMC Systems Biology Y1 - 2017 UR - https://link.springer.com/epdf/10.1186/s12918-017-0449-6?author_access_token=54a9mC7bl_t-6TjlSqdqNG_BpE1tBhCbnbw3BuzI2RMKIgJAZ9nr6Hm0LME2XT_scd04D6IjdxN2SajBh1-bYG6TDIkKQYJrtczMPmCV290rFO3LRZ0YPUqCBRlezXRq1AJVJo-7YPWMt0G3LF52OA%3D%3D U6 - https://doi.org/10.1186/s12918-017-0449-6 SN - 1752-0509 VL - 11 ER - TY - GEN A1 - Gilbert, David A1 - Heiner, Monika A1 - Ghanbar, Leila T1 - Personalised models for human – gut microbiota interaction T2 - PeerJ preprints Y1 - 2017 UR - https://peerj.com/preprints/3267/ U6 - https://doi.org/10.7287/peerj.preprints.3267v1 SN - 2167-9843 VL - 5 IS - e3267v1 ER - TY - CHAP A1 - Heiner, Monika ED - Rondelez, Yannick ED - Woods, Damien T1 - From Petri Nets to Partial Differential Equations: A Petri Net Perspective on Systems and Synthetic Biology T2 - DNA computing and molecular programming, 22nd international conference, DNA 22, Munich, Germany, September 4-8, 2016, proceedings Y1 - 2016 UR - http://link.springer.com/book/10.1007%2F978-3-319-43994-5 SN - 978-3-319-43993-8 SN - 978-3-319-43994-5 PB - Springer CY - Cham ER - TY - GEN A1 - Gilbert, David A1 - Heiner, Monika A1 - Rohr, Christian T1 - Petri-net-based 2D Design of DNA Walker Circuits T2 - Natural Computing Y1 - 2018 U6 - https://doi.org/10.1007/s11047-018-9671-4 SN - 1572-9796 SN - 1567-7818 VL - 17 IS - 1 SP - 161 EP - 182 ER - TY - GEN A1 - Xu, Hongwei A1 - Curtis, Tanya Y. A1 - Powers, Stephen J. A1 - Raffan, Sarah A1 - Gao, Runhong A1 - Huang, Jianhua A1 - Heiner, Monika A1 - Gilbert, David A1 - Halford, Nigel G. T1 - Genomic, biochemical and modelling analyses of asparagine synthetases from wheat T2 - Frontiers in Plant Science Y1 - 2018 U6 - https://doi.org/10.3389/fpls.2017.02237 SN - 1664-462X VL - 8 ER - TY - CHAP A1 - Heiner, Monika T1 - Petri Net Based Software Dependability Engineering T2 - Proceedings, Ninth Symposium on Quality and Reliability in Electronics, 16th - 18th October, 1995, Budapest, Hungary Y1 - 1995 UR - http://www-dssz.informatik.tu-cottbus.de/publications/papers/1995_budapest.pdf SP - 181 EP - 186 CY - Budapest ER - TY - CHAP A1 - Lindner, G. A1 - Heiner, Monika A1 - Kobienia, Thomas T1 - Deadlock Detection in a Distributed Implementation of a Visualization System for Medical Measurement Signals T2 - IEEE International Conference on Systems, Man and Cybernetics, 14-17 Oct. 1996 Beijing, China, vol. 3 Y1 - 1996 UR - http://www-dssz.informatik.tu-cottbus.de/publications/papers/1996_bejing.pdf SN - 0-7803-3280-6 U6 - https://doi.org/10.1109/ICSMC.1996.565526 N1 - referiert SP - 2299 EP - 2304 PB - IEEE CY - Piscataway, NJ ER - TY - CHAP A1 - Heiner, Monika A1 - Deussen, Peter H. A1 - Spranger, Jochen T1 - A Case Study in Developing Control Software of Manufacturing Systems with Hierarchical Petri Nets T2 - Proceedings 1st International Workshop on Manufacturing and Petri Nets held at International Conference on Application and Theory of Petri Nets (ICATPN '96, Osaka, June 1996) Y1 - 1996 UR - http://www-dssz.informatik.tu-cottbus.de/publications/papers/1996_osaka.pdf N1 - referiert SP - 177 EP - 196 ER - TY - CHAP A1 - Heiner, Monika A1 - Deussen, Peter H. T1 - A Case Study in Design and Validation of Reactive Systems by Means of Petri Nets T2 - CESA '96 IMACS Multiconference, Computational Engineering in Systems Applications, Symposium "Discrete Events and Manufacturing Systems", Lille, July 1996 Y1 - 1996 UR - http://www-dssz.informatik.tu-cottbus.de/publications/papers/1996_lille.pdf N1 - referiert SP - 121 EP - 126 ER - TY - CHAP A1 - Heiner, Monika A1 - Deussen, Peter H. T1 - Petri Net Based Design and Analysis of Reactive Systems T2 - International Workshop on Discrete Event Systems, WODES '96, 19 - 21 August 1996, John McIntyre Centre, Pollock Halls, University of Edinburgh, UK Y1 - 1996 UR - http://www-dssz.informatik.tu-cottbus.de/publications/papers/1996_edingburgh.pdf SN - 0-85296-664-4 N1 - referiert SP - 308 EP - 313 PB - IEE CY - London ER - TY - CHAP A1 - Popova-Zeugmann, Louchka A1 - Heiner, Monika ED - Schnieder, Eckehard T1 - Worst-case Analysis of Concurrent Systems with Duration Interval Petri Nets T2 - EKA '97, Entwurf komplexer Automatisierungssysteme, 5. Fachtagung mit Tutorium, 21. bis 23. Mai 1997, Braunschweig Y1 - 1997 UR - http://www-dssz.informatik.tu-cottbus.de/publications/papers/1997_popova_heiner_eka97.pdf SN - 3-9803363-4-4 N1 - referiert SP - 162 EP - 179 PB - Inst. für Regelungs- und Automatisierungstechnik CY - Braunschweig ER - TY - CHAP A1 - König, Hartmut A1 - Ulrich, Andreas A1 - Heiner, Monika ED - Kim, Myungchul ED - Kang, Sungwon ED - Hong, Keesoo T1 - Design for Testability: A Step-wise Approach to Protocol Testing T2 - Testing of Communicating Systems, IFIP TC6 10th International Workshop on Testing of Communicating Systems, 8-10 September 1997, Cheju Island, Korea Y1 - 1997 SN - 978-1-4757-6701-8 SN - 978-0-387-35198-8 U6 - https://doi.org/10.1007/978-0-387-35198-8_9 N1 - referiert SP - 125 EP - 140 PB - Springer CY - Boston ER - TY - CHAP A1 - Heiner, Monika A1 - Menzel, Thomas T1 - Modellierung und Analyse von SPS-Anwenderprogrammen mit Petri-Netzen T2 - EKA '99, 6. Fachtagung, Braunschweig, May 1999 Y1 - 1999 UR - http://www-dssz.informatik.tu-cottbus.de/publications/papers/1999_eka99.pdf N1 - referiert SP - 247 EP - 265 ER - TY - GEN A1 - Heiner, Monika A1 - Deussen, Peter H. A1 - Spranger, Jochen T1 - A Case Study in Design and Verification of Manufacturing Systems with Hierarchical Petri Nets T2 - The International Journal of Advanced Manufacturing Technology Y1 - 1999 UR - http://www-dssz.informatik.tu-cottbus.de/publications/papers/1999_heiner_deussen_spranger_journalAMT_productionCell.pdf SN - 1433-3015 SN - 0268-3768 VL - 15 IS - 2 SP - 139 EP - 152 ER - TY - CHAP A1 - Heiner, Monika A1 - Heisel, Maritta ED - Felici, Massimo T1 - Modelling Safety-Critical Systems with Z and Petri Nets T2 - Computer safety, reliability and security, 18th International Conference, SAFECOMP '99, Toulouse, France, September 27 - 29, 1999, proceedings Y1 - 1999 UR - http://www-dssz.informatik.tu-cottbus.de/publications/papers/1999_heiner_heisel_safecomp_lncs1698.pdf SN - 3-540-66488-2 U6 - https://doi.org/10.1007/3-540-48249-0_31 SP - 361 EP - 374 PB - Springer CY - Berlin [u.a.] ER - TY - CHAP A1 - Heiner, Monika A1 - Menzel, Thomas ED - Boel, Rene ED - Stremerch, G. Geert T1 - Time-related Modelling of PLC Systems with Time-less Petri Nets T2 - Discrete event systems : analysis and control, proceedings of the 5th Workshop on Discrete Event Systems, held in Ghent, Belgium, on August 21 - 23, 2000 Y1 - 2000 UR - http://www-dssz.informatik.tu-cottbus.de/publications/papers/2000_gent_wodes.pdf SN - 0-7923-7897-0 N1 - referiert SP - 275 EP - 282 PB - Kluwer Academic Publishers CY - Boston [u.a.] ER - TY - CHAP A1 - Heiner, Monika A1 - Popova-Zeugmann, Louchka T1 - On Integration of Qualitative and Quantitative Analysis of Manufacturing Systems Using Petri Nets T2 - Informatik und Automatisierung im Zeitalter der Informationsgesellschaft, 42. Internationales Wissenschaftliches Kolloquium, 22. bis 25. September 1997, Band 1 Y1 - 1997 UR - http://www-dssz.informatik.tu-cottbus.de/publications/papers/1997_heiner_popova_ilmenau.pdf N1 - referiert SP - 557 EP - 562 PB - Technische Universität CY - Ilmenau ER - TY - CHAP A1 - Heiner, Monika T1 - Verification and Optimization of Control Programs by Petri Nets without State Explosion T2 - Proceedings 2nd International Workshop on Manufacturing and Petri Nets held at International Conference on Application and Theory of Petri Nets (ICATPN '97, Toulouse, June 1997) Y1 - 1997 UR - http://www-dssz.informatik.tu-cottbus.de/publications/papers/1997_heiner_toulouse.pdf N1 - referiert SP - 69 EP - 84 ER - TY - CHAP A1 - Heiner, Monika T1 - On Exploiting the Analysis Power of Petri nets for the Validation of Discrete Event Systems T2 - Proceedings, IMACS Symposium on Mathematical Modelling, February 5 - 7, 1997, Technical Univ. Vienna, Austria, 2nd Mathmod Vienna Y1 - 1997 SN - 3-901608-11-7 N1 - referiert SP - 171 EP - 176 PB - ARGESIM CY - Vienna ER - TY - CHAP A1 - Heiner, Monika A1 - Menzel, Thomas T1 - A Petri Net Semantics for the PLC Language Instruction List T2 - Proceedings IEE Workshop on Discrete Event Systems (WODES '98), Cagliari, August 1998 Y1 - 1998 UR - http://www-dssz.informatik.tu-cottbus.de/publications/papers/1998_wodes.pdf N1 - referiert SP - 161 EP - 165 ER - TY - CHAP A1 - Heiner, Monika A1 - Menzel, Thomas T1 - Instruction List Verification Using a Petri Net Semantics T2 - 1998 IEEE International Conference on Systems, Man and Cybernetics, San Diego, Calif., USA, October 11 - 14, 1998 Y1 - 1998 SN - 0-7803-4778-1 U6 - https://doi.org/10.1109/ICSMC.1998.725498 N1 - referiert SP - 716 EP - 721 PB - IEEE CY - Piscataway, NJ ER - TY - CHAP A1 - Heiner, Monika T1 - Petri Net Based System Analysis without State Explosion T2 - Proceedings High Performance Computing '98, Boston, April 1998, SCS Int. San Diego 1998 Y1 - 1998 UR - http://www-dssz.informatik.tu-cottbus.de/publications/papers/1998_boston.pdf N1 - referiert SP - 394 EP - 403 ER - TY - GEN A1 - Gambin, Anna A1 - Heiner, Monika T1 - Advances in Biological processes and Petri nets (BioPPN) T2 - Fundamenta Informaticae Y1 - 2018 U6 - https://doi.org/10.3233/FI-2018-1671 SN - 0169-2968 SN - 1875-8681 VL - 160 IS - 1-2 SP - V EP - VII ER - TY - GEN A1 - Liu, Fei A1 - Chen, Siyuan A1 - Heiner, Monika A1 - Song, Hengjie T1 - Modeling Biological Systems with Uncertain Kinetic Data Using Fuzzy Continuous Petri Nets T2 - BMC Systems Biology Y1 - 2018 U6 - https://doi.org/10.1186/s12918-018-0568-8 SN - 1752-0509 VL - 12 IS - Supplement 4 SP - 64 EP - 74 ER - TY - GEN A1 - Baldan, Paolo A1 - Bocci, Martina A1 - Brigolin, Daniele A1 - Cocco, Nicoletta A1 - Heiner, Monika A1 - Simeoni, Marta T1 - Petri Nets for modelling and analysing Trophic Networks T2 - Fundamenta Informaticae Y1 - 2018 U6 - https://doi.org/10.3233/FI-2018-1673 SN - 0169-2968 SN - 1875-8681 VL - 160 IS - 1-2 SP - 27 EP - 52 ER - TY - GEN A1 - Herajy, Mostafa A1 - Heiner, Monika T1 - Adaptive and Bio-semantics of Continuous Petri Nets: Choosing the Appropriate Interpretation T2 - Fundamenta Informaticae Y1 - 2018 U6 - https://doi.org/10.3233/FI-2018-1674 SN - 1875-8681 SN - 0169-2968 VL - 160 IS - 1-2 SP - 53 EP - 80 ER - TY - GEN A1 - Colombo, Riccardo A1 - Damiani, Chiara A1 - Gilbert, David A1 - Heiner, Monika A1 - Mauri, Giancarlo A1 - Pescini, Dario T1 - Emerging ensembles of kinetic parameters to identify experimentally observed phenotypes T2 - BMC bioinformatics KW - Ensembles KW - Fluxes KW - Kinetic parameters KW - Mechanistic simulations KW - Metabolism KW - ODEs KW - Steady state KW - Systems biology Y1 - 2018 UR - https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-018-2181-7 U6 - https://doi.org/10.1186/s12859-018-2181-7 SN - 1471-2105 VL - 19 IS - Suppl. 7 SP - 46 EP - 59 ER - TY - GEN A1 - Herajy, Mostafa A1 - Liu, Fei A1 - Rohr, Christian A1 - Heiner, Monika T1 - Coloured Hybrid Petri Nets: an Adaptable Modelling Approach for Multi-scale Biological Networks T2 - Computational Biology and Chemistry KW - Coloured Petri nets KW - Hybrid Petri Nets KW - Multi-scale modelling KW - Bistable switch KW - Dendritic spines Y1 - 2018 U6 - https://doi.org/10.1016/j.compbiolchem.2018.05.023 SN - 1476-9271 VL - 76 SP - 87 EP - 100 ER - TY - CHAP A1 - Chodak, Jacek A1 - Heiner, Monika ED - Lorenz, Robert ED - Metzger, Johannes T1 - Spike - a command line tool for continuous, stochastic & hybrid simulation of (coloured) Petri nets T2 - Algorithms and Tools for Petri Nets -Proceedings of the Workshop AWPN 2018 Y1 - 2018 UR - https://opus.bibliothek.uni-augsburg.de/opus4/frontdoor/deliver/index/docId/41861/file/awpn18-lorenz-metzger-OPUS.pdf#page=9 SP - 1 EP - 6 PB - Universität, Institut für Informatik CY - Augsburg ER - TY - CHAP A1 - Ismail, Amr A1 - Herajy, Mostafa A1 - Heiner, Monika ED - Liò, Pietro ED - Zuliani, Paolo T1 - A Graphical Approach for the Hybrid Modelling of Intracellular Calcium Dynamics Based on Coloured Hybrid Petri Nets T2 - Automated Reasoning for Systems Biology and Medicine Y1 - 2019 UR - https://link.springer.com/chapter/10.1007/978-3-030-17297-8_13 SN - 978-3-030-17296-1 SN - 978-3-030-17297-8 U6 - https://doi.org/10.1007/978-3-030-17297-8_13 SP - 349 EP - 367 PB - Springer CY - Cham ER -