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Figure8_SBML.sbml
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Figure8_SBML.sbml
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<?xml version='1.0' encoding='UTF-8' standalone='no'?>
<!-- This model was downloaded from BioModels Database -->
<!-- Wed Sep 04 09:34:57 BST 2013 -->
<!-- http://www.ebi.ac.uk/biomodels/ -->
<sbml xmlns="http://www.sbml.org/sbml/level2/version3" level="2" metaid="metaid_0000001" version="3">
<model id="Locke2008_Circadian_Clock" name="Locke2008_Circadian_Clock" metaid="metaid_0000002">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>The model reproduces Fig 2A of the paper. Model successfully reproduced using Jarnac and MathSBML.</p>
<br/>
<p>To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to <a href="http://creativecommons.org/publicdomain/zero/1.0/" title="Creative Commons CC0">CC0 Public Domain Dedication</a>
for more information. </p>
<p>In summary, you are entitled to use this encoded model in absolutely any manner you deem suitable, verbatim, or with modification, alone or embedded it in a larger context, redistribute it, commercially or not, in a restricted way or not.</p>
<br/>
<p>To cite BioModels Database, please use: <a href="http://www.ncbi.nlm.nih.gov/pubmed/20587024" target="_blank">Li C, Donizelli M, Rodriguez N, Dharuri H, Endler L, Chelliah V, Li L, He E, Henry A, Stefan MI, Snoep JL, Hucka M, Le Novère N, Laibe C (2010) BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. BMC Syst Biol., 4:92.</a>
</p>
</body>
</notes>
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<rdf:Description rdf:about="#metaid_0000002">
<dc:creator>
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<vCard:N rdf:parseType="Resource">
<vCard:Family>Dharuri</vCard:Family>
<vCard:Given>Harish</vCard:Given>
</vCard:N>
<vCard:EMAIL>hdharuri@cds.caltech.edu</vCard:EMAIL>
<vCard:ORG rdf:parseType="Resource">
<vCard:Orgname>California Institute of Technology</vCard:Orgname>
</vCard:ORG>
</rdf:li>
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</dc:creator>
<dcterms:created rdf:parseType="Resource">
<dcterms:W3CDTF>2008-08-20T08:10:29Z</dcterms:W3CDTF>
</dcterms:created>
<dcterms:modified rdf:parseType="Resource">
<dcterms:W3CDTF>2012-07-11T17:47:04Z</dcterms:W3CDTF>
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</listOfUnits>
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</species>
<species id="Z2" initialConcentration="0" name="Transcriptional repressor" metaid="metaid_0000030" compartment="compartment"/>
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<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
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</species>
</listOfSpecies>
<listOfParameters>
<parameter id="F" constant="false" metaid="metaid_0000003" value="0" units="nM"/>
<parameter id="v_1" metaid="metaid_0000004" value="6.8355" units="nM_hr_1"/>
<parameter id="K1" metaid="metaid_0000005" value="2.7266" units="nM"/>
<parameter id="n" metaid="metaid_0000006" value="5.6645" units="dimensionless"/>
<parameter id="v_2" metaid="metaid_0000007" value="8.4297" units="nM_hr_1"/>
<parameter id="K2" metaid="metaid_0000008" value="0.291" units="nM"/>
<parameter id="vc" metaid="metaid_0000009" value="6.7924" units="nM_hr_1"/>
<parameter id="K" metaid="metaid_0000010" value="1" units="dimensionless"/>
<parameter id="Kc" metaid="metaid_0000011" value="4.8283" units="nM"/>
<parameter id="L" metaid="metaid_0000012" value="0" units="nM_hr_1"/>
<parameter id="k3" metaid="metaid_0000013" value="0.1177" units="hr_1"/>
<parameter id="v_4" metaid="metaid_0000014" value="1.0841" units="nM_hr_1"/>
<parameter id="K4" metaid="metaid_0000015" value="8.1343" units="nM"/>
<parameter id="k5" metaid="metaid_0000016" value="0.3352" units="hr_1"/>
<parameter id="v_6" metaid="metaid_0000017" value="4.6645" units="nM_hr_1"/>
<parameter id="K6" metaid="metaid_0000018" value="9.9849" units="nM"/>
<parameter id="k7" metaid="metaid_0000019" value="0.2282" units="hr_1"/>
<parameter id="v_8" metaid="metaid_0000020" value="3.5216" units="nM_hr_1"/>
<parameter id="K8" metaid="metaid_0000021" value="7.4519" units="nM"/>
</listOfParameters>
<listOfRules>
<assignmentRule metaid="metaid_0000032" variable="F">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<apply>
<divide/>
<cn type="integer"> 1 </cn>
<cn type="integer"> 2 </cn>
</apply>
<apply>
<plus/>
<ci> V1 </ci>
<ci> V2 </ci>
</apply>
</apply>
</math>
</assignmentRule>
</listOfRules>
<listOfReactions>
<reaction id="R1" name="Transcription" metaid="metaid_0000033" reversible="false">
<annotation>
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<ci> v_1 </ci>
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<ci> K1 </ci>
<ci> n </ci>
</apply>
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<apply>
<plus/>
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<power/>
<ci> K1 </ci>
<ci> n </ci>
</apply>
<apply>
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<ci> Z1 </ci>
<ci> n </ci>
</apply>
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