Location: Guyton, Atrial, Natriuretic, Peptide, 2008 @ e955eb75c5c4 / atr_natriuretic_peptide_parent.cellml

Author:
jonna <devnull@localhost>
Date:
2009-07-16 14:55:08+12:00
Desc:
Added General Files. Changed links of dependencies so can open from web-browser. Added RDF metadata for citation and keywords, removed publication link from documentation.
Permanent Source URI:
https://models.cellml.org/workspace/guyton_atrial_natriuretic_peptide_2008/rawfile/e955eb75c5c423288497d8f7b3b90bbaaca73e7c/atr_natriuretic_peptide_parent.cellml

<?xml version="1.0" encoding="utf-8"?>
<model 
	name="atrial_natriuretic_peptide_parent_model"
	cmeta:id="atrial_natriuretic_peptide_parent_model"
	
	xmlns="http://www.cellml.org/cellml/1.1#"
	xmlns:cellml="http://www.cellml.org/cellml/1.1#"
	xmlns:cmeta="http://www.cellml.org/metadata/1.0#"
	xmlns:xlink="http://www.w3.org/1999/xlink">

	<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
		<rdf:Description rdf:about="#atrial_natriuretic_peptide_parent_model">
			<rdf:value>
			This is the CellML 1.1 "parent" file to test the Atrial Natriuretic Peptide Model. 
			</rdf:value>
		</rdf:Description>
	</rdf:RDF>

<!-- ==========================================	DOCUMENTATION	============================================== -->
<documentation xmlns="http://cellml.org/tmp-documentation">
<article>
  <articleinfo>
  <title>Guyton Model: Atrial Natriuretic Peptide</title>
  <author>
    <firstname>Catherine</firstname>
          <surname>Lloyd</surname>
    <affiliation>
      <shortaffil>Auckland Bioengineering Institute, University of Auckland</shortaffil>
    </affiliation>
  </author>
</articleinfo>

<section id="cellml_1_1">
<title>CellML 1.1 Version</title>
<para>
This is a CellML 1.1 version of the Atrial Natriuretic Peptide Module of the Guyton Circulation model. To run, click on "Solve using OpenCell" and all 
dependent files and components will be imported. To run offline, please download all files from the <ulink url="/workspace/guyton_atrial_natriuretic_peptide_2008/">workspace</ulink> into the same directory and open 
"atr_natriuretic_peptide_parent.cellml" in OpenCell.
</para>
</section>  


  <section id="sec_status">
    <title>Model Status</title>
    <para>
        This CellML model has been validated. Due to the differences between procedural code (in this case C-code) 
		and declarative languages (CellML), some aspects of the original model were not able to be encapsulated by 
		the CellML model (such as the damping of variables). This may effect the transient behaviour of the model, 
		however the steady-state behaviour would remain	the same. The equations in this file and the steady-state 
		output from the model conform to the results from the MODSIM program. 
	</para>
  </section>
  <sect1 id="sec_structure">
  <title>Model Structure</title>

<para>
Arthur Guyton (1919-2003) was an American physiologist who became famous for his 1950s experiments in which he studied 
the physiology of cardiac output and its relationship with the peripheral circulation.  The results of these experiments 
challenged the conventional wisdom that it was the heart itself that controlled cardiac output.  Instead Guyton demonstrated 
that it was the need of the body tissues for oxygen which was the real regulator of cardiac output.  The "Guyton Curves" 
describe the relationship between right atrial pressures and cardiac output, and they form a foundation for understanding 
the physiology of circulation. 
</para>

<para>
The Guyton model of fluid, electrolyte, and circulatory regulation is an extensive mathematical model of human circulatory 
physiology, capable of simulating a variety of experimental conditions, and contains a number of linked subsystems relating 
to circulation and its neuroendocrine control.
</para>

<para>
This is a CellML translation of the Guyton model of the regulation of the circulatory system.  The complete model consists 
of separate modules each of which characterise a separate physiological subsystems.  The Circulation Dynamics is the primary 
system, to which other modules/blocks are connected.  The other modules characterise the dynamics of the kidney, electrolytes 
and cell water, thirst and drinking, hormone regulation, autonomic regulation, cardiovascular system etc, and these feedback 
on the central circulation model.  The CellML code in these modules is based on the C code from the programme C-MODSIM created 
by Dr Jean-Pierre Montani.
</para>

<para>
This particular CellML model describes the control of atrial natriuretic peptide secretion by the left and right atria of 
the heart.  It also calculates a multiplier factor for controlling the resistance of the afferent arterioles (AAR) of the kidneys.
</para>

<informalfigure float="0" id="full_diagram">
<mediaobject>
  <imageobject>
    <objectinfo>
      <title>model diagram</title>
    </objectinfo>
    <imagedata fileref="full_model.png"/>
  </imageobject>
</mediaobject>
<caption>A systems analysis diagram for the full Guyton model describing circulation regulation.</caption>
</informalfigure>


<informalfigure float="0" id="atrial_natriuretic_peptide_diagram">
<mediaobject>
  <imageobject>
    <objectinfo>
      <title>model diagram</title>
    </objectinfo>
    <imagedata fileref="atrial_natriuretic_peptide.png"/>
  </imageobject>
</mediaobject>
<caption>A schematic diagram of the components and processes described in the current CellML model.</caption>
</informalfigure>

<para>
There are several publications referring to the Guyton model. One of these papers is cited below:
</para>

<para>
Circulation: Overall Regulation,  A.C. Guyton, T.G. Coleman, and H.J. Granger, 1972, 
            <emphasis>Annual Review of Physiology</emphasis>
          , 34, 13-44.  <ulink url="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=pubmed&amp;cmd=Retrieve&amp;dopt=AbstractPlus&amp;list_uids=4334846&amp;query_hl=1&amp;itool=pubmed_docsum">PubMed ID: 4334846</ulink>
</para>

</sect1>
</article>
</documentation> 


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    <!--
      The following RDF block contains metadata that applies to this document
      as a whole, as indicated by the empty about attribute on the 
      <rdf:Description> element.
    -->
    <rdf:Description rdf:about="">
      <!--
        The Model Builder Metadata.  The Dublin Core "creator" element is used  
        to indicate the person who translated the model into CellML.
      -->
      <dc:creator rdf:parseType="Resource">
        <vCard:N rdf:parseType="Resource">
          <vCard:Family>Terkildsen</vCard:Family>
          <vCard:Given>Jonna</vCard:Given>
        </vCard:N>
        <vCard:EMAIL rdf:parseType="Resource">
          <rdf:value>j.terkildsen@auckland.ac.nz</rdf:value>
          <rdf:type rdf:resource="http://imc.org/vCard/3.0#internet" />
        </vCard:EMAIL>
        <vCard:ORG rdf:parseType="Resource">
          <vCard:Orgname>The University of Auckland</vCard:Orgname>
          <vCard:Orgunit>The Bioengineering Institute</vCard:Orgunit>
        </vCard:ORG>
      </dc:creator>
      
      <!--
        The Creation Date metadata. This is the date on which the model
        was translated into CellML.
      -->
      <dcterms:created rdf:parseType="Resource">
        <dcterms:W3CDTF>2008-04-03</dcterms:W3CDTF>
      </dcterms:created>
      
      <!--
        The Modification History metadata. This lists the changes that have been
        made to the document, who made the changes, and when they were made.
      -->
      
      <!-- The Publisher metadata. -->
      <dc:publisher>
        The University of Auckland, Bioengineering Institute
      </dc:publisher>
    </rdf:Description>
  </rdf:RDF>

<!-- =======================================================    CITATION AND KEYWORD METADATA    ================================================== -->

	<rdf:RDF
			xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
			xmlns:bqs="http://www.cellml.org/bqs/1.0#"
			xmlns:dc="http://purl.org/dc/elements/1.1/"
			xmlns:dcterms="http://purl.org/dc/terms/"
			xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">
		<rdf:Description rdf:about="#atrial_natriuretic_peptide_parent_model">
			<bqs:reference rdf:parseType="Resource">
				<bqs:JournalArticle rdf:parseType="Resource">
					<dc:creator>
						<rdf:Seq>
							<rdf:li rdf:parseType="Resource">
								<rdf:type rdf:resource="http://www.cellml.org/bqs/1.0#Person" />
								<vCard:N rdf:parseType="Resource">
									<vCard:Family>Guyton</vCard:Family>
									<vCard:Given></vCard:Given>
									<vCard:Other></vCard:Other>
								</vCard:N>
							</rdf:li>
							<rdf:li rdf:parseType="Resource">
								<rdf:type rdf:resource="http://www.cellml.org/bqs/1.0#Person" />
								<vCard:N rdf:parseType="Resource">
									<vCard:Family>Atrial Natriuretic Peptide</vCard:Family>
									<vCard:Given></vCard:Given>
									<vCard:Other></vCard:Other>
								</vCard:N>
							</rdf:li>

						</rdf:Seq>
					</dc:creator>
					<dc:title>Description of Guyton atrial natriuretic peptide module</dc:title>
					<bqs:volume />
					<bqs:first_page />
					<bqs:last_page />
					<bqs:Journal rdf:parseType="Resource">
						<dc:title></dc:title>
					</bqs:Journal>
					<dcterms:issued rdf:parseType="Resource">
						<dcterms:W3CDTF>2008-00-00 00:00</dcterms:W3CDTF>
					</dcterms:issued>
				</bqs:JournalArticle>
			</bqs:reference>
			<bqs:reference rdf:parseType="Resource">
				<dc:subject rdf:parseType="Resource">
					<bqs:subject_type>keyword</bqs:subject_type>
					<rdf:value>
					<rdf:Bag>
						<rdf:li>physiology</rdf:li>
						<rdf:li>organ systems</rdf:li>
						<rdf:li>cardiovascular circulation</rdf:li>
						<rdf:li>vatrial natriuretic peptide</rdf:li>
						<rdf:li>Guyton</rdf:li>
					</rdf:Bag>
					</rdf:value>
				</dc:subject>
			</bqs:reference>
		</rdf:Description>
	</rdf:RDF>

<!-- =============================================	Import the required units from the Units file	==================================================== -->
	<import xlink:href="units.cellml">
		<units name="minute" units_ref="minute"/>
		<units name="per_minute" units_ref="per_minute"/>
		<units name="beats_per_minute" units_ref="beats_per_minute"/>
		<units name="beats_per_minute_per_mmHg" units_ref="beats_per_minute_per_mmHg"/>
		<units name="minute_per_L" units_ref="minute_per_L"/>
		<units name="mmHg" units_ref="mmHg"/>
		<units name="per_mmHg" units_ref="per_mmHg"/>
		<units name="mmHg_per_mL" units_ref="mmHg_per_mL"/>
		<units name="mmHg_L" units_ref="mmHg_L"/>
		<units name="per_mmHg2" units_ref="per_mmHg2"/>
		<units name="mmHg3" units_ref="mmHg3"/>
		<units name="monovalent_mEq" units_ref="monovalent_mEq"/>
		<units name="monovalent_mEq_per_minute" units_ref="monovalent_mEq_per_minute"/>
		<units name="monovalent_mEq_per_litre" units_ref="monovalent_mEq_per_litre"/>
		<units name="mOsm" units_ref="mOsm"/>
		<units name="mOsm_per_litre" units_ref="mOsm_per_litre"/>
		<units name="mOsm_per_minute" units_ref="mOsm_per_minute"/>
		<units name="monovalent_mEq_per_litre_per_minute" units_ref="monovalent_mEq_per_litre_per_minute"/>
		<units name="litre2_per_monovalent_mEq_per_minute" units_ref="litre2_per_monovalent_mEq_per_minute"/>
		<units name="L_per_minute" units_ref="L_per_minute"/>
		<units name="per_mmHg_per_minute" units_ref="per_mmHg_per_minute"/>
		<units name="mL" units_ref="mL"/>
		<units name="gram_per_L" units_ref="gram_per_L"/>
		<units name="L_mmHg_per_gram" units_ref="L_mmHg_per_gram"/>
		<units name="L2_mmHg_per_gram2" units_ref="L2_mmHg_per_gram2"/>
		<units name="mmHg_minute_per_L" units_ref="mmHg_minute_per_L"/>
		<units name="mmHg_L_per_minute" units_ref="mmHg_L_per_minute"/>
		<units name="gram_per_minute" units_ref="gram_per_minute"/>
		<units name="mL_per_L" units_ref="mL_per_L"/>
		<units name="mL_per_L_per_mmHg" units_ref="mL_per_L_per_mmHg"/>
		<units name="mL_per_L_per_minute" units_ref="mL_per_L_per_minute"/>
		<units name="mL_per_minute_per_mmHg" units_ref="mL_per_minute_per_mmHg"/>
		<units name="L_mL_per_minute_per_mmHg" units_ref="L_mL_per_minute_per_mmHg"/>
		<units name="L_per_mL" units_ref="L_per_mL"/>
		<units name="L_per_mmHg" units_ref="L_per_mmHg"/>
		<units name="mL_per_minute" units_ref="mL_per_minute"/>
		<units name="L_per_minute_per_mmHg" units_ref="L_per_minute_per_mmHg"/>
		<units name="L_per_minute_per_mmHg2" units_ref="L_per_minute_per_mmHg2"/>
	</import>

<!-- =====================================	Import all Parameters and State Variables from the Parameter file	============================================== -->
	<import xlink:href="parameters.cellml">
		<component component_ref="parameter_values" name="parameter_values"/>
		<component component_ref="state_variables" name="state_variables"/>
	</import>

<!-- ============================================	Import Environment Component from the Environment file	============================================== -->
	<import xlink:href="environment.cellml">
		<component component_ref="environment" name="environment"/>
	</import>

<!-- ============================================	Import all the separate model files and their components	============================================== -->
	<import xlink:href="atr_natriuretic_peptide.cellml">
		<component component_ref="atrial_natriuretic_peptide" name="atrial_natriuretic_peptide"/>
	</import>

	
<!-- ========================================	INPUT VALUES		============================================= -->
	<component 	name="input_values" 
				cmeta:id="input_values">
		<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
			<rdf:Description rdf:about="#input_values">
				<rdf:value>
				Component to set all input values to 1.0 or a prescribed value.
				</rdf:value>
			</rdf:Description>
		</rdf:RDF>
		
		<variable name="PLA" 	initial_value="2.0"		units="mmHg" private_interface="none" public_interface="out"/>
		<variable name="PRA" 	initial_value="0.00852183"		units="mmHg" private_interface="none" public_interface="out"/>
	</component>
	
<!-- ATRIAL NATRIURETIC PEPTIDE INPUT CONNECTIONS -->
	<connection>
		<map_components component_1="atrial_natriuretic_peptide" component_2="input_values"/>
		<map_variables variable_1="PLA" variable_2="PLA"/>
		<map_variables variable_1="PRA" variable_2="PRA"/>
	</connection>
	<connection>
		<map_components component_1="atrial_natriuretic_peptide" component_2="environment"/>
		<map_variables variable_1="time" variable_2="time"/>
	</connection>




</model>