Location: Wodarz, Sierro, Klenerman, 2007 @ e53e0201fa59 / wodarz_sierro_klenerman_2007_c.cellml

Author:
Catherine Lloyd <c.lloyd@auckland.ac.nz>
Date:
2010-01-11 10:44:23+13:00
Desc:
Updated documentation and fixed broken RDF. Tessa in her previous commit curated the nodel itself such that all 3 versions are now running correctly in OpenCell.
Permanent Source URI:
https://models.cellml.org/workspace/wodarz_sierro_klenerman_2007/rawfile/e53e0201fa59e1ffc793ab13c454d197abb7b46d/wodarz_sierro_klenerman_2007_c.cellml

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This CellML file was generated on 8/01/2010 at 1:28:35 at p.m. using:

COR (0.9.31.1333)
Copyright 2002-2010 Dr Alan Garny
http://cor.physiol.ox.ac.uk/ - cor@physiol.ox.ac.uk

CellML 1.0 was used to generate this model
http://www.cellml.org/
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                        <title>Dynamics of killer T cell inflation in viral infections</title>
                        <author>
                              <firstname>Catherine</firstname>
                              <surname>Lloyd</surname>
                              <affiliation>
                                    <shortaffil>Auckland Bioengineering Institute, The University of Auckland</shortaffil>
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				  <section id="sec_status">
				<title>Model Status</title>
				<para>
            This CellML model represents the third model in the original paper (this builds on the first 'core' model which describes the basic dynamics of the cytotoxic T lymphocyte (CTL) infection, and the second model which includes a description of the CTL response to the virus infection, by incorporating a natural killer (NK) cell response to the viral infection).  The model runs in OpenCell to recreate the results in the published paper.  The units have been checked and they are consistent.  The model also runs in COR but due to the long duration of the simulation is not ideal for use in COR.
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			        <sect1 id="sec_structure">
                        <title>Model Structure</title>
                        <para>ABSTRACT: Upon acute viral infection, a typical cytotoxic T lymphocyte (CTL) response is characterized by a phase of expansion and contraction after which it settles at a relatively stable memory level. Recently, experimental data from mice infected with murine cytomegalovirus (MCMV) showed different and unusual dynamics. After acute infection had resolved, some antigen specific CTL started to expand over time despite the fact that no replicative virus was detectable. This phenomenon has been termed as "CTL memory inflation". In order to examine the dynamics of this system further, we developed a mathematical model analysing the impact of innate and adaptive immune responses. According to this model, a potentially important contributor to CTL inflation is competition between the specific CTL response and an innate natural killer (NK) cell response. Inflation occurs most readily if the NK cell response is more efficient than the CTL at reducing virus load during acute infection, but thereafter maintains a chronic virus load which is sufficient to induce CTL proliferation. The model further suggests that weaker NK cell mediated protection can correlate with more pronounced CTL inflation dynamics over time. We present experimental data from mice infected with MCMV which are consistent with the theoretical predictions. This model provides valuable information and may help to explain the inflation of CMV specific CD8+T cells seen in humans as they age.</para>
						
						<para>The original paper reference is cited below:</para>
                        <para>
                              Dynamics of killer T cell inflation in viral infections, Dominik Wodarz, Sophie Sierro and Paul Klenerman, 2007, <emphasis>Journal of the Royal Society, Interface</emphasis>, volume 4, issue 14, 533-543. <ulink url="http://www.ncbi.nlm.nih.gov/pubmed/17251133">PubMed ID: 17251133</ulink>
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                                                <title>model diagram</title>
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                              <caption>Schematic diagram of the different components and variables included in the mathematical model of the dynamics of killer T cell inflation.  The core model comprises five components: susceptible host cells (x), free virus particles (v), early-infected cells (y0), late-infected cells (y1), and latently-infected cells (L).  When susceptible host cells become infected with virus, the product cells are either productively infected or are latently infected.  Productively infected cells can be divided into two subsets; those which express early-gene products and those which express late-gene products.  The latter produce new free virus particles and the replication cycle is completed.  Latently infected cells are initially silent but can become activated, giving rise to more productively infected cells.  Virus-specific CTL (za) divide on antigenic stimulation (ca) and kill virus-infected host cells through lysis (pa).  NK cells (zi) can also divide upon antigenic stimulation (ci) and are able to kill virus-infected host cells (pi).</caption>
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      <map_variables variable_1="y1" variable_2="y1"/>
   </connection>
   <connection xmlns="http://www.cellml.org/cellml/1.0#">
      <map_components component_1="v" component_2="model_parameters"/>
      <map_variables variable_1="k" variable_2="k"/>
      <map_variables variable_1="u" variable_2="u"/>
   </connection>
   <connection xmlns="http://www.cellml.org/cellml/1.0#">
      <map_components component_1="m_8" component_2="m_7"/>
      <map_variables variable_1="m_7" variable_2="m_7"/>
   </connection>
   <connection xmlns="http://www.cellml.org/cellml/1.0#">
      <map_components component_1="m_8" component_2="model_parameters"/>
      <map_variables variable_1="r" variable_2="r"/>
   </connection>
   <connection xmlns="http://www.cellml.org/cellml/1.0#">
      <map_components component_1="m_7" component_2="m_6"/>
      <map_variables variable_1="m_6" variable_2="m_6"/>
   </connection>
   <connection xmlns="http://www.cellml.org/cellml/1.0#">
      <map_components component_1="m_7" component_2="model_parameters"/>
      <map_variables variable_1="r" variable_2="r"/>
   </connection>
   <connection xmlns="http://www.cellml.org/cellml/1.0#">
      <map_components component_1="m_6" component_2="m_5"/>
      <map_variables variable_1="m_5" variable_2="m_5"/>
   </connection>
   <connection xmlns="http://www.cellml.org/cellml/1.0#">
      <map_components component_1="m_6" component_2="model_parameters"/>
      <map_variables variable_1="r" variable_2="r"/>
   </connection>
   <connection xmlns="http://www.cellml.org/cellml/1.0#">
      <map_components component_1="m_5" component_2="m_4"/>
      <map_variables variable_1="m_4" variable_2="m_4"/>
   </connection>
   <connection xmlns="http://www.cellml.org/cellml/1.0#">
      <map_components component_1="m_5" component_2="model_parameters"/>
      <map_variables variable_1="r" variable_2="r"/>
   </connection>
   <connection xmlns="http://www.cellml.org/cellml/1.0#">
      <map_components component_1="m_4" component_2="m_3"/>
      <map_variables variable_1="m_3" variable_2="m_3"/>
   </connection>
   <connection xmlns="http://www.cellml.org/cellml/1.0#">
      <map_components component_1="m_4" component_2="model_parameters"/>
      <map_variables variable_1="r" variable_2="r"/>
   </connection>
   <connection xmlns="http://www.cellml.org/cellml/1.0#">
      <map_components component_1="m_3" component_2="m_2"/>
      <map_variables variable_1="m_2" variable_2="m_2"/>
   </connection>
   <connection xmlns="http://www.cellml.org/cellml/1.0#">
      <map_components component_1="m_3" component_2="model_parameters"/>
      <map_variables variable_1="r" variable_2="r"/>
   </connection>
   <connection xmlns="http://www.cellml.org/cellml/1.0#">
      <map_components component_1="m_2" component_2="m_1"/>
      <map_variables variable_1="m_1" variable_2="m_1"/>
   </connection>
   <connection xmlns="http://www.cellml.org/cellml/1.0#">
      <map_components component_1="m_2" component_2="model_parameters"/>
      <map_variables variable_1="r" variable_2="r"/>
   </connection>
   <connection xmlns="http://www.cellml.org/cellml/1.0#">
      <map_components component_1="m_1" component_2="m_0"/>
      <map_variables variable_1="m_0" variable_2="m_0"/>
   </connection>
   <connection xmlns="http://www.cellml.org/cellml/1.0#">
      <map_components component_1="m_1" component_2="model_parameters"/>
      <map_variables variable_1="r" variable_2="r"/>
   </connection>
   <connection xmlns="http://www.cellml.org/cellml/1.0#">
      <map_components component_1="m_0" component_2="model_parameters"/>
      <map_variables variable_1="r" variable_2="r"/>
   </connection>
   <connection xmlns="http://www.cellml.org/cellml/1.0#">
      <map_components component_1="za" component_2="m_8"/>
      <map_variables variable_1="m_8" variable_2="m_8"/>
   </connection>
   <connection xmlns="http://www.cellml.org/cellml/1.0#">
      <map_components component_1="za" component_2="model_parameters"/>
      <map_variables variable_1="alpha" variable_2="alpha"/>
      <map_variables variable_1="ca" variable_2="ca"/>
      <map_variables variable_1="ba" variable_2="ba"/>
   </connection>
   <connection xmlns="http://www.cellml.org/cellml/1.0#">
      <map_components component_1="zi" component_2="model_parameters"/>
      <map_variables variable_1="xi" variable_2="xi"/>
      <map_variables variable_1="ci" variable_2="ci"/>
      <map_variables variable_1="bi" variable_2="bi"/>
   </connection>
   <connection xmlns="http://www.cellml.org/cellml/1.0#">
      <map_components component_1="R0" component_2="model_parameters"/>
      <map_variables variable_1="a0" variable_2="a0"/>
      <map_variables variable_1="gamma" variable_2="gamma"/>
      <map_variables variable_1="lambda" variable_2="lambda"/>
      <map_variables variable_1="phi" variable_2="phi"/>
      <map_variables variable_1="a1" variable_2="a1"/>
      <map_variables variable_1="beta" variable_2="beta"/>
      <map_variables variable_1="eta" variable_2="eta"/>
      <map_variables variable_1="d" variable_2="d"/>
   </connection>
</model>