<?xml version="1.0" encoding="utf-8"?>
<export-example>
  <doc>
    <id>11464</id>
    <completedYear/>
    <publishedYear>2014</publishedYear>
    <thesisYearAccepted/>
    <language>eng</language>
    <pageFirst>49</pageFirst>
    <pageLast>67</pageLast>
    <pageNumber/>
    <edition/>
    <issue>1-2</issue>
    <volume>129</volume>
    <type>articler</type>
    <publisherName/>
    <publisherPlace/>
    <creatingCorporation/>
    <contributingCorporation/>
    <belongsToBibliography>0</belongsToBibliography>
    <completedDate>2014-06-27</completedDate>
    <publishedDate>--</publishedDate>
    <thesisDateAccepted>--</thesisDateAccepted>
    <title language="eng">Petri Net-Based Collaborative Simulation and Steering of Biochemical Reaction Networks</title>
    <parentTitle language="eng">Fundamenta Informaticae</parentTitle>
    <identifier type="url">http://iospress.metapress.com/content/y8760m2p02256uw3</identifier>
    <identifier type="issn">0169-2968</identifier>
    <enrichment key="BTU">an der BTU erstellt / created at BTU</enrichment>
    <author>
      <firstName>Mostafa</firstName>
      <lastName>Herajy</lastName>
    </author>
    <submitter>
      <firstName>Sigrid</firstName>
      <lastName>Schenk</lastName>
    </submitter>
    <author>
      <firstName>Monika</firstName>
      <lastName>Heiner</lastName>
    </author>
    <collection role="old_institute" number="01014">LS Informatik / Datenstrukturen und Softwarezuverlässigkeit</collection>
    <collection role="institutes" number="1281">FG Datenstrukturen und Softwarezuverlässigkeit</collection>
  </doc>
  <doc>
    <id>11472</id>
    <completedYear/>
    <publishedYear>2012</publishedYear>
    <thesisYearAccepted/>
    <language>eng</language>
    <pageFirst>942</pageFirst>
    <pageLast>959</pageLast>
    <pageNumber/>
    <edition/>
    <issue>4</issue>
    <volume>6</volume>
    <type>articler</type>
    <publisherName/>
    <publisherPlace/>
    <creatingCorporation/>
    <contributingCorporation/>
    <belongsToBibliography>0</belongsToBibliography>
    <completedDate>2014-06-27</completedDate>
    <publishedDate>--</publishedDate>
    <thesisDateAccepted>--</thesisDateAccepted>
    <title language="eng">Hybrid Representation and Simulation of Stiff Biochemical Networks</title>
    <parentTitle language="eng">Nonlinear Analysis: Hybrid Systems</parentTitle>
    <identifier type="url">http://www.sciencedirect.com/science/article/pii/S1751570X12000192</identifier>
    <identifier type="issn">1751-570X</identifier>
    <enrichment key="BTU">an der BTU erstellt / created at BTU</enrichment>
    <submitter>
      <firstName>Sigrid</firstName>
      <lastName>Schenk</lastName>
    </submitter>
    <author>
      <firstName>Mostafa</firstName>
      <lastName>Herajy</lastName>
    </author>
    <author>
      <firstName>Monika</firstName>
      <lastName>Heiner</lastName>
    </author>
    <collection role="old_institute" number="01014">LS Informatik / Datenstrukturen und Softwarezuverlässigkeit</collection>
    <collection role="institutes" number="1281">FG Datenstrukturen und Softwarezuverlässigkeit</collection>
  </doc>
  <doc>
    <id>17772</id>
    <completedYear/>
    <publishedYear>2015</publishedYear>
    <thesisYearAccepted/>
    <language>eng</language>
    <pageFirst>53</pageFirst>
    <pageLast/>
    <pageNumber/>
    <edition/>
    <issue/>
    <volume>3</volume>
    <type>articler</type>
    <publisherName/>
    <publisherPlace/>
    <creatingCorporation/>
    <contributingCorporation/>
    <belongsToBibliography>0</belongsToBibliography>
    <completedDate>2016-12-15</completedDate>
    <publishedDate>--</publishedDate>
    <thesisDateAccepted>--</thesisDateAccepted>
    <title language="eng">Modeling and Simulation of Multi-scale Environmental Systems with Generalized Hybrid Petri Nets</title>
    <parentTitle language="eng">Frontiers in Environmental Science</parentTitle>
    <identifier type="doi">10.3389/fenvs.2015.00053</identifier>
    <identifier type="url">http://www.frontiersin.org/environmental_informatics/10.3389/fenvs.2015.00053/abstract</identifier>
    <identifier type="issn">2296-665X</identifier>
    <enrichment key="BTU">an der BTU erstellt / created at BTU</enrichment>
    <author>
      <firstName>Mostafa</firstName>
      <lastName>Herajy</lastName>
    </author>
    <submitter>
      <firstName>Sigrid</firstName>
      <lastName>Schenk</lastName>
    </submitter>
    <author>
      <firstName>Monika</firstName>
      <lastName>Heiner</lastName>
    </author>
    <collection role="institutes" number="1281">FG Datenstrukturen und Softwarezuverlässigkeit</collection>
  </doc>
  <doc>
    <id>20696</id>
    <completedYear/>
    <publishedYear>2017</publishedYear>
    <thesisYearAccepted/>
    <language>eng</language>
    <pageFirst>191</pageFirst>
    <pageLast>212</pageLast>
    <pageNumber/>
    <edition/>
    <issue/>
    <volume>27</volume>
    <type>articler</type>
    <publisherName/>
    <publisherPlace/>
    <creatingCorporation/>
    <contributingCorporation/>
    <belongsToBibliography>0</belongsToBibliography>
    <completedDate>2017-12-07</completedDate>
    <publishedDate>--</publishedDate>
    <thesisDateAccepted>--</thesisDateAccepted>
    <title language="eng">Efficient modelling of yeast cell cycles based on multisite phosphorylation using coloured hybrid Petri nets with marking-dependent arc weights</title>
    <parentTitle language="eng">Nonlinear analysis: Hybrid systems</parentTitle>
    <identifier type="doi">10.1016/j.nahs.2017.09.002</identifier>
    <identifier type="url">https://www.sciencedirect.com/science/article/pii/S1751570X17300808</identifier>
    <identifier type="issn">1751-570X</identifier>
    <enrichment key="BTU">an der BTU erstellt / created at BTU</enrichment>
    <author>
      <firstName>Mostafa</firstName>
      <lastName>Herajy</lastName>
    </author>
    <submitter>
      <firstName>Sigrid</firstName>
      <lastName>Schenk</lastName>
    </submitter>
    <author>
      <firstName>Fei</firstName>
      <lastName>Liu</lastName>
    </author>
    <author>
      <firstName>Monika</firstName>
      <lastName>Heiner</lastName>
    </author>
    <collection role="institutes" number="1281">FG Datenstrukturen und Softwarezuverlässigkeit</collection>
  </doc>
  <doc>
    <id>20700</id>
    <completedYear/>
    <publishedYear>2017</publishedYear>
    <thesisYearAccepted/>
    <language>eng</language>
    <pageFirst/>
    <pageLast/>
    <pageNumber>16</pageNumber>
    <edition/>
    <issue/>
    <volume>11</volume>
    <type>articler</type>
    <publisherName/>
    <publisherPlace/>
    <creatingCorporation/>
    <contributingCorporation/>
    <belongsToBibliography>0</belongsToBibliography>
    <completedDate>2017-12-07</completedDate>
    <publishedDate>--</publishedDate>
    <thesisDateAccepted>--</thesisDateAccepted>
    <title language="eng">Snoopy’s hybrid simulator: a tool to construct and simulate hybrid biological models</title>
    <parentTitle language="eng">BMC Systems Biology</parentTitle>
    <identifier type="doi">10.1186/s12918-017-0449-6</identifier>
    <identifier type="url">https://link.springer.com/epdf/10.1186/s12918-017-0449-6?author_access_token=54a9mC7bl_t-6TjlSqdqNG_BpE1tBhCbnbw3BuzI2RMKIgJAZ9nr6Hm0LME2XT_scd04D6IjdxN2SajBh1-bYG6TDIkKQYJrtczMPmCV290rFO3LRZ0YPUqCBRlezXRq1AJVJo-7YPWMt0G3LF52OA%3D%3D</identifier>
    <identifier type="issn">1752-0509</identifier>
    <enrichment key="BTU">an der BTU erstellt / created at BTU</enrichment>
    <enrichment key="Artikelnummer">71</enrichment>
    <author>
      <firstName>Mostafa</firstName>
      <lastName>Herajy</lastName>
    </author>
    <submitter>
      <firstName>Sigrid</firstName>
      <lastName>Schenk</lastName>
    </submitter>
    <author>
      <firstName>Fei</firstName>
      <lastName>Liu</lastName>
    </author>
    <author>
      <firstName>Christian</firstName>
      <lastName>Rohr</lastName>
    </author>
    <author>
      <firstName>Monika</firstName>
      <lastName>Heiner</lastName>
    </author>
    <collection role="institutes" number="1281">FG Datenstrukturen und Softwarezuverlässigkeit</collection>
  </doc>
  <doc>
    <id>21869</id>
    <completedYear/>
    <publishedYear>2018</publishedYear>
    <thesisYearAccepted/>
    <language>eng</language>
    <pageFirst>53</pageFirst>
    <pageLast>80</pageLast>
    <pageNumber/>
    <edition/>
    <issue>1-2</issue>
    <volume>160</volume>
    <type>articler</type>
    <publisherName/>
    <publisherPlace/>
    <creatingCorporation/>
    <contributingCorporation/>
    <belongsToBibliography>0</belongsToBibliography>
    <completedDate>2018-05-07</completedDate>
    <publishedDate>--</publishedDate>
    <thesisDateAccepted>--</thesisDateAccepted>
    <title language="eng">Adaptive and Bio-semantics of Continuous Petri Nets: Choosing the Appropriate Interpretation</title>
    <parentTitle language="eng">Fundamenta Informaticae</parentTitle>
    <identifier type="doi">10.3233/FI-2018-1674</identifier>
    <identifier type="issn">1875-8681</identifier>
    <identifier type="issn">0169-2968</identifier>
    <enrichment key="BTU">an der BTU erstellt / created at BTU</enrichment>
    <author>
      <firstName>Mostafa</firstName>
      <lastName>Herajy</lastName>
    </author>
    <submitter>
      <firstName>Sigrid</firstName>
      <lastName>Schenk</lastName>
    </submitter>
    <author>
      <firstName>Monika</firstName>
      <lastName>Heiner</lastName>
    </author>
    <collection role="institutes" number="1281">FG Datenstrukturen und Softwarezuverlässigkeit</collection>
  </doc>
  <doc>
    <id>22115</id>
    <completedYear/>
    <publishedYear>2018</publishedYear>
    <thesisYearAccepted/>
    <language>eng</language>
    <pageFirst>87</pageFirst>
    <pageLast>100</pageLast>
    <pageNumber/>
    <edition/>
    <issue/>
    <volume>76</volume>
    <type>articler</type>
    <publisherName/>
    <publisherPlace/>
    <creatingCorporation/>
    <contributingCorporation/>
    <belongsToBibliography>0</belongsToBibliography>
    <completedDate>2018-07-19</completedDate>
    <publishedDate>--</publishedDate>
    <thesisDateAccepted>--</thesisDateAccepted>
    <title language="eng">Coloured Hybrid Petri Nets: an Adaptable Modelling Approach for Multi-scale Biological Networks</title>
    <parentTitle language="eng">Computational Biology and Chemistry</parentTitle>
    <identifier type="doi">10.1016/j.compbiolchem.2018.05.023</identifier>
    <identifier type="issn">1476-9271</identifier>
    <enrichment key="BTU">an der BTU erstellt / created at BTU</enrichment>
    <author>
      <firstName>Mostafa</firstName>
      <lastName>Herajy</lastName>
    </author>
    <submitter>
      <firstName>Sigrid</firstName>
      <lastName>Schenk</lastName>
    </submitter>
    <author>
      <firstName>Fei</firstName>
      <lastName>Liu</lastName>
    </author>
    <author>
      <firstName>Christian</firstName>
      <lastName>Rohr</lastName>
    </author>
    <author>
      <firstName>Monika</firstName>
      <lastName>Heiner</lastName>
    </author>
    <subject>
      <language>eng</language>
      <type>uncontrolled</type>
      <value>Coloured Petri nets</value>
    </subject>
    <subject>
      <language>eng</language>
      <type>uncontrolled</type>
      <value>Hybrid Petri Nets</value>
    </subject>
    <subject>
      <language>eng</language>
      <type>uncontrolled</type>
      <value>Multi-scale modelling</value>
    </subject>
    <subject>
      <language>eng</language>
      <type>uncontrolled</type>
      <value>Bistable switch</value>
    </subject>
    <subject>
      <language>eng</language>
      <type>uncontrolled</type>
      <value>Dendritic spines</value>
    </subject>
    <collection role="institutes" number="1281">FG Datenstrukturen und Softwarezuverlässigkeit</collection>
  </doc>
  <doc>
    <id>26243</id>
    <completedYear/>
    <publishedYear>2020</publishedYear>
    <thesisYearAccepted/>
    <language>eng</language>
    <pageFirst/>
    <pageLast/>
    <pageNumber>14</pageNumber>
    <edition/>
    <issue/>
    <volume/>
    <type>articler</type>
    <publisherName/>
    <publisherPlace/>
    <creatingCorporation/>
    <contributingCorporation/>
    <belongsToBibliography>0</belongsToBibliography>
    <completedDate>2020-11-03</completedDate>
    <publishedDate>--</publishedDate>
    <thesisDateAccepted>--</thesisDateAccepted>
    <title language="eng">A Graphical Approach for Hybrid Simulation of 3D Diffusion Bio-Models via Coloured Hybrid Petri Nets</title>
    <abstract language="eng">Three-dimensional modelling of biological systems is imperative to study the behaviour of dynamic systems that require the analysis of how their components interact in space. However, there are only a few formal tools that offer a convenient modelling of such systems. The traditional approach to construct and simulate 3D models is to build a system of partial differential equations (PDEs). Although this approach may be computationally efficient and has been employed by many researchers over the years, it is not always intuitive since it does not provide a visual depiction of the modelled systems. Indeed, a visual modelling can help to conceive a mental image which eventually contributes to the understanding of the problem under study. Coloured Hybrid Petri Nets () are a high-level representation of classical Petri nets that offer hybrid as well as spatial modelling of biological systems. In addition to their graphical representations, models are also scalable. This paper shows how can be used to construct and simulate systems that require three-dimensional as well as hybrid (stochastic/continuous) modelling. We use calcium diffusion in three dimensions to illustrate our main ideas. More specifically, we show that creating 3D models using can yield more flexible models as the structure can be easily scaled up and down by just modifying a few parameters. This advantage of convenient model configuration facilitates the design of different experiments without the need to alter the model structure.</abstract>
    <parentTitle language="eng">Modelling and Simulation in Engineering</parentTitle>
    <identifier type="doi">10.1155/2020/4715172</identifier>
    <identifier type="url">https://www.hindawi.com/journals/mse/2020/4715172/</identifier>
    <identifier type="issn">1687-5605</identifier>
    <enrichment key="BTU">an der BTU erstellt / created at BTU</enrichment>
    <enrichment key="Artikelnummer">4715172</enrichment>
    <enrichment key="Fprofil">4 Künstliche Intelligenz und Sensorik / Artificial Intelligence and Sensor Technology</enrichment>
    <author>
      <firstName>Amr</firstName>
      <lastName>Ismail</lastName>
    </author>
    <editor>
      <firstName>Jing-song</firstName>
      <lastName>Hong</lastName>
    </editor>
    <submitter>
      <firstName>Sigrid</firstName>
      <lastName>Schenk</lastName>
    </submitter>
    <author>
      <firstName>Mostafa</firstName>
      <lastName>Herajy</lastName>
    </author>
    <author>
      <firstName>Elsayed</firstName>
      <lastName>Atlam</lastName>
    </author>
    <author>
      <firstName>Monika</firstName>
      <lastName>Heiner</lastName>
    </author>
    <collection role="institutes" number="1281">FG Datenstrukturen und Softwarezuverlässigkeit</collection>
  </doc>
</export-example>
