- Author:
- Hanne <Hanne@hanne-nielsens-macbook.local>
- Date:
- 2010-06-23 10:54:27+12:00
- Desc:
- Added clickable SVG
- Permanent Source URI:
- http://models.cellml.org/workspace/devries_sherman_2000/rawfile/904fae6a079ccf6b92a7c23a62a5e2f173ea6094/devries_sherman_2000.cellml
<?xml version="1.0"?>
<!-- FILE : devries_model_2000.xml
CREATED : 9th May 2002
LAST MODIFIED : 9th April 2003
AUTHOR : Catherine Lloyd
Bioengineering Institute
The University of Auckland
MODEL STATUS : This model conforms to the CellML 1.0 Specification released on
10th August 2001, and the 16/01/2002 CellML Metadata 1.0 Specification.
DESCRIPTION : This file contains a CellML description of De Vries and Sherman's
2000 mathematical model of channel sharing in pancreatic beta cells.
CHANGES:
18/07/2002 - CML - Added more metadata.
09/04/2003 - AAC - Added publication date information.
--><model xmlns="http://www.cellml.org/cellml/1.0#" xmlns:cmeta="http://www.cellml.org/metadata/1.0#" xml:base="" cmeta:id="devries_2000" name="devries_2000">
<documentation xmlns="http://cellml.org/tmp-documentation">
<article>
<articleinfo>
<title>Enhancement Of Emergent Bursting In Pancreatic Beta-Cells</title>
<author>
<firstname>Catherine</firstname>
<surname>Lloyd</surname>
<affiliation>
<shortaffil>Auckland Bioengineering Institute, The University of Auckland</shortaffil>
</affiliation>
</author>
</articleinfo>
<section id="sec_status">
<title>Model Status</title>
<para>
This model has been validated and is known to run in OpenCell to recreate the published results (figure 1). The paper by Devries and Sherman describes several different parameter sets including single cell and two cell sets, and also describes a deterministic and a stochastic model. This CellML model uses equations 1-3 and the parameters given in table 1 for the single cell deterministic model. For this particular model lambda = 0.9. Note there is a unit inconsistency in the equation for V, but our attempts to balance the units for this equation resulted in a model which no longer worked.
</para>
</section>
<sect1 id="sec_structure">
<title>Model Structure</title>
<para>
ABSTRACT: Secretion of insulin by electrically coupled populations of pancreatic beta -cells is governed by bursting electrical activity. Isolated beta -cells, however, exhibit atypical bursting or continuous spike activity. We study bursting as an emergent property of the population, focussing on interactions among the subclass of spiking cells. These are modelled by equipping the fast subsystem with a saddle-node-loop bifurcation, which makes it monostable. Such cells can only spike tonically or remain silent when isolated, but can be induced to burst with weak diffusive coupling. With stronger coupling, the cells revert to tonic spiking. We demonstrate that the addition of noise dramatically increases, via a phenomenon like stochastic resonance, the coupling range over which bursting is seen.
</para>
<para>
The original paper reference is cited below:
</para>
<para>
Channel Sharing in Pancreatic Beta-Cells Revisited: Enhancement of Emergent Bursting by Noise, Gerda De Vries and Arthur Sherman, 2000,
<emphasis>The Journal Of Theoretical Biology</emphasis>
, 207, 513-530. <ulink url="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=11093836&dopt=Abstract">PubMed ID: 11093836</ulink>
</para>
<informalfigure float="0" id="fig_cell_diagram">
<mediaobject>
<imageobject>
<objectinfo>
<title>diagram of the model</title>
</objectinfo>
<imagedata fileref="devries_2000.png"/>
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</mediaobject>
<caption>A schematic representation of the four transmembrane currents captured by the De Vries and Sherman 2000 pancreatic beta-cell model.</caption>
</informalfigure>
</sect1>
</article>
</documentation>
<units name="millisecond">
<unit prefix="milli" units="second"/>
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<units name="millivolt">
<unit prefix="milli" units="volt"/>
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<variable name="i_K" public_interface="in" units="picoA"/>
<variable name="i_K_ATP" public_interface="in" units="picoA"/>
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</math>
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<component name="calcium_current_m_gate">
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<component name="potassium_current">
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<component name="potassium_current_n_gate">
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<variable name="tau" public_interface="in" units="millisecond"/>
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<ci> V_n </ci>
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<ci> theta_n </ci>
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</apply>
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</math>
</component>
<component name="slow_current">
<variable cmeta:id="slow_current_i_s" name="i_s" public_interface="out" units="picoA"/>
<variable initial_value="4.0" name="g_s" units="nanoS"/>
<variable name="time" private_interface="out" public_interface="in" units="millisecond"/>
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<variable name="V_K" public_interface="in" units="millivolt"/>
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<math xmlns="http://www.w3.org/1998/Math/MathML">
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<component name="slow_current_s_gate">
<variable initial_value="0.01" name="s" public_interface="out" units="dimensionless"/>
<variable name="s_infinity" units="dimensionless"/>
<variable initial_value="-22.0" name="V_s" units="millivolt"/>
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<math xmlns="http://www.w3.org/1998/Math/MathML">
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<group>
<relationship_ref relationship="encapsulation"/>
<component_ref component="calcium_current">
<component_ref component="calcium_current_m_gate"/>
</component_ref>
<component_ref component="potassium_current">
<component_ref component="potassium_current_n_gate"/>
</component_ref>
<component_ref component="slow_current">
<component_ref component="slow_current_s_gate"/>
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<connection>
<map_components component_1="slow_current" component_2="slow_current_s_gate"/>
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<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"><rdf:Description rdf:about="rdf:#e987619b-dafb-4773-9fec-ce920d9d2b8e"><W3CDTF xmlns="http://purl.org/dc/terms/" xml:lang="en">2000-12-21</W3CDTF></rdf:Description><rdf:Description rdf:about=""><created xmlns="http://purl.org/dc/terms/"><rdf:Description rdf:about="rdf:#1e126bba-fb86-4d99-8b36-bc72e2fa582d"/></created><cmeta:comment><rdf:Description rdf:about="rdf:#9445be8a-8371-4705-a876-7b74dc40f1e5"/></cmeta:comment><creator xmlns="http://purl.org/dc/elements/1.1/"><rdf:Description rdf:about="rdf:#dca0b7cb-ed30-49ab-adb9-6aa2bd25b862"/></creator><publisher xmlns="http://purl.org/dc/elements/1.1/" xml:lang="en">The University of Auckland, Bioengineering Institute</publisher><cmeta:modification><rdf:Description rdf:about="rdf:#a59f7078-aaa5-48b2-ba0f-21b4e2a5ad1a"/></cmeta:modification><cmeta:modification><rdf:Description rdf:about="rdf:#19990779-99e0-4c2e-8791-eb6ca661418a"/></cmeta:modification></rdf:Description><rdf:Description rdf:about="rdf:#d96f743c-9626-4619-8e44-3a5c2f1bd007"><N xmlns="http://www.w3.org/2001/vcard-rdf/3.0#"><rdf:Description rdf:about="rdf:#9f930bac-df91-45f2-bb17-bc15167c624f"/></N></rdf:Description><rdf:Description rdf:about="rdf:#a59f7078-aaa5-48b2-ba0f-21b4e2a5ad1a"><rdf:value xml:lang="en">
Added publication date information.
</rdf:value><modified xmlns="http://purl.org/dc/terms/"><rdf:Description rdf:about="rdf:#cf3e3f8f-7e11-443f-90ad-0822a735ce0a"/></modified><cmeta:modifier><rdf:Description rdf:about="rdf:#d96f743c-9626-4619-8e44-3a5c2f1bd007"/></cmeta:modifier></rdf:Description><rdf:Description rdf:about="rdf:#af85bc35-865b-4c23-8abd-7bd29bd75a99"><rdf:value xml:lang="en">This is the CellML description of De Vries and Sherman's 2000 mathematical model of channel sharing in pancreatic beta cells.</rdf:value><creator xmlns="http://purl.org/dc/elements/1.1/"><rdf:Description rdf:about="rdf:#3f2b4068-c042-4cea-94eb-bb94329f0bb5"/></creator></rdf:Description><rdf:Description rdf:about="rdf:#4b13ed30-b15c-40b0-bc3c-988674725a00"><rdf:type><rdf:Description rdf:about="http://www.cellml.org/bqs/1.0#Person"/></rdf:type><N xmlns="http://www.w3.org/2001/vcard-rdf/3.0#"><rdf:Description rdf:about="rdf:#028ae873-a07c-419a-ab99-a28a8a03f810"/></N></rdf:Description><rdf:Description rdf:about="rdf:#56bf1774-e18f-40dc-a679-e83f8ddf6991"><rdf:type><rdf:Description rdf:about="http://www.cellml.org/bqs/1.0#Person"/></rdf:type><N xmlns="http://www.w3.org/2001/vcard-rdf/3.0#"><rdf:Description rdf:about="rdf:#10cf7f4a-4a29-4b5a-8e2b-a6229cd4a75c"/></N></rdf:Description><rdf:Description rdf:about="rdf:#dca0b7cb-ed30-49ab-adb9-6aa2bd25b862"><ORG xmlns="http://www.w3.org/2001/vcard-rdf/3.0#"><rdf:Description rdf:about="rdf:#b43c7271-f4e8-4054-b518-776543d9e3c1"/></ORG><N xmlns="http://www.w3.org/2001/vcard-rdf/3.0#"><rdf:Description rdf:about="rdf:#7473cee2-7cc6-4a17-8e8e-eaf43ce94e06"/></N><EMAIL xmlns="http://www.w3.org/2001/vcard-rdf/3.0#"><rdf:Description rdf:about="rdf:#cae683c8-a57a-46d1-953b-eb3b16eff93f"/></EMAIL></rdf:Description><rdf:Description rdf:about="rdf:#028ae873-a07c-419a-ab99-a28a8a03f810"><Given xmlns="http://www.w3.org/2001/vcard-rdf/3.0#" xml:lang="en">Arthur</Given><Family xmlns="http://www.w3.org/2001/vcard-rdf/3.0#" xml:lang="en">Sherman</Family></rdf:Description><rdf:Description rdf:about="#devries_2000"><title xmlns="http://purl.org/dc/elements/1.1/" xml:lang="en">
De Vries and Sherman's 2000 mathematical model of channel sharing in pancreatic beta cells.
</title><cmeta:comment><rdf:Description rdf:about="rdf:#af85bc35-865b-4c23-8abd-7bd29bd75a99"/></cmeta:comment><reference xmlns="http://www.cellml.org/bqs/1.0#"><rdf:Description rdf:about="rdf:#ab8aea5c-d64b-4526-8c53-76dd0b956d36"/></reference><reference xmlns="http://www.cellml.org/bqs/1.0#"><rdf:Description rdf:about="rdf:#c851321c-aaa7-44d4-916f-f08eb90225f6"/></reference><cmeta:bio_entity xml:lang="en">Pancreatic Beta-Cell</cmeta:bio_entity><simulation xmlns="http://www.cellml.org/metadata/simulation/1.0#"><rdf:Description rdf:nodeID="n1"/></simulation></rdf:Description><rdf:Description rdf:about="rdf:#9db561ec-2e53-4e57-8cf9-dd4b3973de08"><FN xmlns="http://www.w3.org/2001/vcard-rdf/3.0#" xml:lang="en">James Lawson</FN></rdf:Description><rdf:Description rdf:about="rdf:#19990779-99e0-4c2e-8791-eb6ca661418a"><rdf:value xml:lang="en">
Added more metadata.
</rdf:value><modified xmlns="http://purl.org/dc/terms/"><rdf:Description rdf:about="rdf:#57b716d5-56af-4748-9ff9-13052054666c"/></modified><cmeta:modifier><rdf:Description rdf:about="rdf:#1620a1f3-eb4c-497f-bd83-8bef5659b988"/></cmeta:modifier></rdf:Description><rdf:Description rdf:nodeID="n1"><boundIntervals xmlns="http://www.cellml.org/metadata/simulation/1.0#"><rdf:Description rdf:nodeID="n2"/></boundIntervals></rdf:Description><rdf:Description rdf:about="rdf:#3f2b4068-c042-4cea-94eb-bb94329f0bb5"><FN xmlns="http://www.w3.org/2001/vcard-rdf/3.0#" xml:lang="en">Catherine Lloyd</FN></rdf:Description><rdf:Description rdf:about="rdf:#03e8ce8e-0889-4b62-9369-db3f6c4cb511"><title xmlns="http://purl.org/dc/elements/1.1/" xml:lang="en">Channel Sharing in Pancreatic Beta-Cells Revisited: Enhancement of Emergent Bursting by Noise</title><creator xmlns="http://purl.org/dc/elements/1.1/"><rdf:Description rdf:about="rdf:#98794999-8cb1-4277-bc4f-cb95114dd55b"/></creator><volume xmlns="http://www.cellml.org/bqs/1.0#" xml:lang="en">207</volume><first_page xmlns="http://www.cellml.org/bqs/1.0#" xml:lang="en">513</first_page><issued xmlns="http://purl.org/dc/terms/"><rdf:Description rdf:about="rdf:#e987619b-dafb-4773-9fec-ce920d9d2b8e"/></issued><Journal xmlns="http://www.cellml.org/bqs/1.0#"><rdf:Description rdf:about="rdf:#be55801c-ef67-4ea1-bdc1-d2038675230d"/></Journal><last_page xmlns="http://www.cellml.org/bqs/1.0#" xml:lang="en">530</last_page></rdf:Description><rdf:Description rdf:about="rdf:#1e126bba-fb86-4d99-8b36-bc72e2fa582d"><W3CDTF xmlns="http://purl.org/dc/terms/" xml:lang="en">2002-05-09T00:00:00+00:00</W3CDTF></rdf:Description><rdf:Description rdf:about="rdf:#23130427-d0a6-4cc4-94a6-a28f521a245c"><rdf:value><rdf:Description rdf:nodeID="n3"/></rdf:value><subject_type xmlns="http://www.cellml.org/bqs/1.0#" xml:lang="en">keyword</subject_type></rdf:Description><rdf:Description rdf:nodeID="n4"><pointDensity xmlns="http://www.cellml.org/metadata/simulation/1.0#nonstandard-" xml:lang="en">100000</pointDensity><endingValue xmlns="http://www.cellml.org/metadata/simulation/1.0#" xml:lang="en">6000</endingValue><maximumStepSize xmlns="http://www.cellml.org/metadata/simulation/1.0#" xml:lang="en">100</maximumStepSize></rdf:Description><rdf:Description rdf:nodeID="n3"><rdf:type><rdf:Description rdf:about="http://www.w3.org/1999/02/22-rdf-syntax-ns#Bag"/></rdf:type><rdf:_1 xml:lang="en">calcium dynamics</rdf:_1><rdf:_2 xml:lang="en">electrophysiology</rdf:_2><rdf:_3 xml:lang="en">beta cell</rdf:_3><rdf:_4 xml:lang="en">pancreas</rdf:_4></rdf:Description><rdf:Description rdf:about="rdf:#ab8aea5c-d64b-4526-8c53-76dd0b956d36"><subject xmlns="http://purl.org/dc/elements/1.1/"><rdf:Description rdf:about="rdf:#23130427-d0a6-4cc4-94a6-a28f521a245c"/></subject></rdf:Description><rdf:Description rdf:about="rdf:#98794999-8cb1-4277-bc4f-cb95114dd55b"><rdf:type><rdf:Description rdf:about="http://www.w3.org/1999/02/22-rdf-syntax-ns#Seq"/></rdf:type><rdf:_1><rdf:Description rdf:about="rdf:#56bf1774-e18f-40dc-a679-e83f8ddf6991"/></rdf:_1><rdf:_2><rdf:Description rdf:about="rdf:#4b13ed30-b15c-40b0-bc3c-988674725a00"/></rdf:_2></rdf:Description><rdf:Description rdf:about="rdf:#be55801c-ef67-4ea1-bdc1-d2038675230d"><title xmlns="http://purl.org/dc/elements/1.1/" xml:lang="en">Journal of theoretical Biology</title></rdf:Description><rdf:Description rdf:about="rdf:#9445be8a-8371-4705-a876-7b74dc40f1e5"><rdf:value xml:lang="en">This model has been validated and is known to run in PCEnv. The paper by Devries and Sherman describes several different parameter sets including single cell and two cell sets, and also describes a deterministic and a stochastic model. This file uses the equations and parameters given for the single cell deterministic model. </rdf:value><creator xmlns="http://purl.org/dc/elements/1.1/"><rdf:Description rdf:about="rdf:#9db561ec-2e53-4e57-8cf9-dd4b3973de08"/></creator></rdf:Description><rdf:Description rdf:about="rdf:#cae683c8-a57a-46d1-953b-eb3b16eff93f"><rdf:type><rdf:Description rdf:about="http://imc.org/vCard/3.0#internet"/></rdf:type><rdf:value xml:lang="en">c.lloyd@auckland.ac.nz</rdf:value></rdf:Description><rdf:Description rdf:about="rdf:#10cf7f4a-4a29-4b5a-8e2b-a6229cd4a75c"><Given xmlns="http://www.w3.org/2001/vcard-rdf/3.0#" xml:lang="en">Gerda</Given><Family xmlns="http://www.w3.org/2001/vcard-rdf/3.0#" xml:lang="en">De Vries</Family></rdf:Description><rdf:Description rdf:nodeID="n2"><rdf:first><rdf:Description rdf:nodeID="n4"/></rdf:first><rdf:rest><rdf:Description rdf:about="http://www.w3.org/1999/02/22-rdf-syntax-ns#nil"/></rdf:rest></rdf:Description><rdf:Description rdf:about="rdf:#57b716d5-56af-4748-9ff9-13052054666c"><W3CDTF xmlns="http://purl.org/dc/terms/" xml:lang="en">2002-07-18</W3CDTF></rdf:Description><rdf:Description rdf:about="rdf:#9f930bac-df91-45f2-bb17-bc15167c624f"><Given xmlns="http://www.w3.org/2001/vcard-rdf/3.0#" xml:lang="en">Autumn</Given><Family xmlns="http://www.w3.org/2001/vcard-rdf/3.0#" xml:lang="en">Cuellar</Family><Other xmlns="http://www.w3.org/2001/vcard-rdf/3.0#" xml:lang="en">A</Other></rdf:Description><rdf:Description rdf:about="rdf:#c851321c-aaa7-44d4-916f-f08eb90225f6"><Pubmed_id xmlns="http://www.cellml.org/bqs/1.0#" xml:lang="en">11093836</Pubmed_id><JournalArticle xmlns="http://www.cellml.org/bqs/1.0#"><rdf:Description rdf:about="rdf:#03e8ce8e-0889-4b62-9369-db3f6c4cb511"/></JournalArticle></rdf:Description><rdf:Description rdf:about="rdf:#b43c7271-f4e8-4054-b518-776543d9e3c1"><Orgunit xmlns="http://www.w3.org/2001/vcard-rdf/3.0#" xml:lang="en">Auckland Bioengineering Institute</Orgunit><Orgname xmlns="http://www.w3.org/2001/vcard-rdf/3.0#" xml:lang="en">The University of Auckland</Orgname></rdf:Description><rdf:Description rdf:about="rdf:#7473cee2-7cc6-4a17-8e8e-eaf43ce94e06"><Given xmlns="http://www.w3.org/2001/vcard-rdf/3.0#" xml:lang="en">Catherine</Given><Family xmlns="http://www.w3.org/2001/vcard-rdf/3.0#" xml:lang="en">Lloyd</Family><Other xmlns="http://www.w3.org/2001/vcard-rdf/3.0#" xml:lang="en">May</Other></rdf:Description><rdf:Description rdf:about="rdf:#1620a1f3-eb4c-497f-bd83-8bef5659b988"><N xmlns="http://www.w3.org/2001/vcard-rdf/3.0#"><rdf:Description rdf:about="rdf:#8baa6d71-9452-41af-be9f-dc416f56e34b"/></N></rdf:Description><rdf:Description rdf:about="rdf:#8baa6d71-9452-41af-be9f-dc416f56e34b"><Given xmlns="http://www.w3.org/2001/vcard-rdf/3.0#" xml:lang="en">Catherine</Given><Family xmlns="http://www.w3.org/2001/vcard-rdf/3.0#" xml:lang="en">Lloyd</Family><Other xmlns="http://www.w3.org/2001/vcard-rdf/3.0#" xml:lang="en">May</Other></rdf:Description><rdf:Description rdf:about="rdf:#cf3e3f8f-7e11-443f-90ad-0822a735ce0a"><W3CDTF xmlns="http://purl.org/dc/terms/" xml:lang="en">2003-04-09</W3CDTF></rdf:Description></rdf:RDF></model>
