<?xml version='1.0' encoding='utf-8'?>
<!-- FILE : hynne_model_2001.xml
CREATED : 18th September 2003
LAST MODIFIED : 18th September 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 16/1/02 CellML Metadata 1.0 Specification.
DESCRIPTION : This file contains a CellML description of Hynee et al's 2001 full scale model of glycolysis in Saccharomyces cerevisiae
CHANGES:
--><model xmlns="http://www.cellml.org/cellml/1.0#" xmlns:cmeta="http://www.cellml.org/metadata/1.0#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqs="http://www.cellml.org/bqs/1.0#" xmlns:cellml="http://www.cellml.org/cellml/1.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" cmeta:id="hynne_2001" name="hynne_2001">
<documentation xmlns="http://cellml.org/tmp-documentation">
<article>
<articleinfo>
<title>Full-scale model of glycolysis in Saccharomyces cerevisiae</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 runs in both OpenCell and COR to replicate the published results (figure 6). The units have been checked and they are consistent. This CellML model translation is based on the curated SBML model in the BioModels database (BIOMD0000000061.xml). Note that in order to replicate figure 6 the model has to be run for at least 100 seconds first to allow all the oscillations to stabilise.
</para>
</section>
<sect1 id="sec_structure">
<title>Model Structure</title>
<para>
ABSTRACT: We present a powerful, general method of fitting a model of a biochemical pathway to experimental substrate concentrations and dynamical properties measured at a stationary state, when the mechanism is largely known but kinetic parameters are lacking. Rate constants and maximum velocities are calculated from the experimental data by simple algebra without integration of kinetic equations. Using this direct approach, we fit a comprehensive model of glycolysis and glycolytic oscillations in intact yeast cells to data measured on a suspension of living cells of Saccharomyces cerevisiae near a Hopf bifurcation, and to a large set of stationary concentrations and other data estimated from comparable batch experiments. The resulting model agrees with almost all experimentally known stationary concentrations and metabolic fluxes, with the frequency of oscillation and with the majority of other experimentally known kinetic and dynamical variables. The functional forms of the rate equations have not been optimized.
</para>
<para>
The original paper reference is cited below:
</para>
<para>
Full-scale model of glycolysis in <emphasis>Saccharomyces cerevisiae</emphasis>, F. Hynne, S. Dano, and P. G. Sorensen , 2001, <emphasis>Biophysical Chemistry</emphasis>
, 94, 121-163. <ulink url="http://www.ncbi.nlm.nih.gov/pubmed/11744196">PubMed ID: 11744196</ulink>
</para>
<informalfigure float="0" id="fig_reaction_diagram">
<mediaobject>
<imageobject>
<objectinfo>
<title>reaction diagram</title>
</objectinfo>
<imagedata fileref="hynne_2001.png"/>
</imageobject>
</mediaobject>
<caption>The glycolysis pathway described by the mathematical model.</caption>
</informalfigure>
</sect1>
</article>
</documentation>
<units name="millimolar">
<unit units="mole" prefix="milli"/>
<unit units="litre" exponent="-1"/>
</units>
<units name="millimolar2">
<unit units="millimolar" exponent="2"/>
</units>
<units name="minute">
<unit units="second" multiplier="60.0"/>
</units>
<units name="flux">
<unit units="millimolar"/>
<unit units="minute" exponent="-1"/>
</units>
<units name="first_order_rate_constant">
<unit units="minute" exponent="-1"/>
</units>
<units name="second_order_rate_constant">
<unit units="millimolar" exponent="-1"/>
<unit units="minute" exponent="-1"/>
</units>
<component name="environment">
<variable units="minute" public_interface="out" name="time"/>
</component>
<component name="Glc_x_0" cmeta:id="Glc_x_0">
<rdf:RDF>
<rdf:Description rdf:about="#Glc_x_0">
<dc:title>Glc_x_0</dc:title>
<dcterms:alternative>mixed flow glucose</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="Glc_x_0" initial_value="24.0"/>
</component>
<component name="Glc_x" cmeta:id="Glc_x">
<rdf:RDF>
<rdf:Description rdf:about="#Glc_x">
<dc:title>Glc_x</dc:title>
<dcterms:alternative>extracellular glucose</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="Glc_x" initial_value="6.7"/>
<variable units="flux" public_interface="in" name="GlcTrans"/>
<variable units="flux" public_interface="in" name="inGlc"/>
<variable units="minute" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>Glc_x</ci>
</apply>
<apply>
<minus/>
<ci>inGlc</ci>
<ci>GlcTrans</ci>
</apply>
</apply>
</math>
</component>
<component name="Glc" cmeta:id="Glc">
<rdf:RDF>
<rdf:Description rdf:about="#Glc">
<dc:title>Glc</dc:title>
<dcterms:alternative>cytosolic glucose</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="Glc" initial_value="0.573074"/>
<variable units="flux" public_interface="in" name="GlcTrans"/>
<variable units="flux" public_interface="in" name="HK"/>
<variable units="minute" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>Glc</ci>
</apply>
<apply>
<minus/>
<apply>
<times/>
<cn cellml:units="dimensionless"> 59 </cn>
<ci>GlcTrans</ci>
</apply>
<ci>HK</ci>
</apply>
</apply>
</math>
</component>
<component name="G6P" cmeta:id="G6P">
<rdf:RDF>
<rdf:Description rdf:about="#G6P">
<dc:title>G6P</dc:title>
<dcterms:alternative>glucose-6-phopshate</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="G6P" initial_value="4.2"/>
<variable units="flux" public_interface="in" name="PGI"/>
<variable units="flux" public_interface="in" name="HK"/>
<variable units="flux" public_interface="in" name="storage"/>
<variable units="minute" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>G6P</ci>
</apply>
<apply>
<minus/>
<ci>HK</ci>
<apply>
<plus/>
<ci>PGI</ci>
<ci>storage</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="F6P" cmeta:id="F6P">
<rdf:RDF>
<rdf:Description rdf:about="#F6P">
<dc:title>F6P</dc:title>
<dcterms:alternative>fructose-6 phopshate</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="F6P" initial_value="0.49"/>
<variable units="flux" public_interface="in" name="PGI"/>
<variable units="flux" public_interface="in" name="PFK"/>
<variable units="minute" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>F6P</ci>
</apply>
<apply>
<minus/>
<ci>PGI</ci>
<ci>PFK</ci>
</apply>
</apply>
</math>
</component>
<component name="FBP" cmeta:id="FBP">
<rdf:RDF>
<rdf:Description rdf:about="#FBP">
<dc:title>FBP</dc:title>
<dcterms:alternative>fructose-1,6 bisphopshate</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="FBP" initial_value="4.64"/>
<variable units="flux" public_interface="in" name="PFK"/>
<variable units="flux" public_interface="in" name="ALD"/>
<variable units="minute" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>FBP</ci>
</apply>
<apply>
<minus/>
<ci>PFK</ci>
<ci>ALD</ci>
</apply>
</apply>
</math>
</component>
<component name="GAP" cmeta:id="GAP">
<rdf:RDF>
<rdf:Description rdf:about="#GAP">
<dc:title>GAP</dc:title>
<dcterms:alternative>glyceraldehyde-3-phopshate</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="GAP" initial_value="0.115"/>
<variable units="flux" public_interface="in" name="GAPDH"/>
<variable units="flux" public_interface="in" name="ALD"/>
<variable units="flux" public_interface="in" name="TIM"/>
<variable units="minute" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>GAP</ci>
</apply>
<apply>
<minus/>
<apply>
<plus/>
<ci>ALD</ci>
<ci>TIM</ci>
</apply>
<ci>GAPDH</ci>
</apply>
</apply>
</math>
</component>
<component name="DHAP" cmeta:id="DHAP">
<rdf:RDF>
<rdf:Description rdf:about="#DHAP">
<dc:title>DHAP</dc:title>
<dcterms:alternative>1,3-diphosphoglycerate</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="DHAP" initial_value="2.95"/>
<variable units="flux" public_interface="in" name="ALD"/>
<variable units="flux" public_interface="in" name="TIM"/>
<variable units="flux" public_interface="in" name="lpGlyc"/>
<variable units="minute" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>DHAP</ci>
</apply>
<apply>
<minus/>
<ci>ALD</ci>
<apply>
<plus/>
<ci>TIM</ci>
<ci>lpGlyc</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="BPG" cmeta:id="BPG">
<rdf:RDF>
<rdf:Description rdf:about="#BPG">
<dc:title>BPG</dc:title>
<dcterms:alternative>1,3-bisphosphoglycerate</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="BPG" initial_value="0.00027"/>
<variable units="flux" public_interface="in" name="lpPEP"/>
<variable units="flux" public_interface="in" name="GAPDH"/>
<variable units="minute" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>BPG</ci>
</apply>
<apply>
<minus/>
<ci>GAPDH</ci>
<ci>lpPEP</ci>
</apply>
</apply>
</math>
</component>
<component name="PEP" cmeta:id="PEP">
<rdf:RDF>
<rdf:Description rdf:about="#PEP">
<dc:title>PEP</dc:title>
<dcterms:alternative>phosphoenolpyruvate</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="PEP" initial_value="0.04"/>
<variable units="flux" public_interface="in" name="lpPEP"/>
<variable units="flux" public_interface="in" name="PK"/>
<variable units="minute" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>PEP</ci>
</apply>
<apply>
<minus/>
<ci>lpPEP</ci>
<ci>PK</ci>
</apply>
</apply>
</math>
</component>
<component name="Pyr" cmeta:id="Pyr">
<rdf:RDF>
<rdf:Description rdf:about="#Pyr">
<dc:title>Pyr</dc:title>
<dcterms:alternative>pyruvate</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="Pyr" initial_value="8.7"/>
<variable units="flux" public_interface="in" name="PK"/>
<variable units="flux" public_interface="in" name="PDC"/>
<variable units="minute" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>Pyr</ci>
</apply>
<apply>
<minus/>
<ci>PK</ci>
<ci>PDC</ci>
</apply>
</apply>
</math>
</component>
<component name="ATP" cmeta:id="ATP">
<rdf:RDF>
<rdf:Description rdf:about="#ATP">
<dc:title>ATP</dc:title>
<dcterms:alternative>adenosine triphosphate</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="ATP" initial_value="2.1"/>
<variable units="flux" public_interface="in" name="HK"/>
<variable units="flux" public_interface="in" name="lpPEP"/>
<variable units="flux" public_interface="in" name="PFK"/>
<variable units="flux" public_interface="in" name="PK"/>
<variable units="flux" public_interface="in" name="storage"/>
<variable units="flux" public_interface="in" name="consum"/>
<variable units="flux" public_interface="in" name="AK"/>
<variable units="minute" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>ATP</ci>
</apply>
<apply>
<minus/>
<apply>
<plus/>
<ci>PK</ci>
<ci>lpPEP</ci>
</apply>
<apply>
<plus/>
<ci>PFK</ci>
<ci>storage</ci>
<ci>HK</ci>
<ci>consum</ci>
<ci>AK</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="ADP" cmeta:id="ADP">
<rdf:RDF>
<rdf:Description rdf:about="#ADP">
<dc:title>ADP</dc:title>
<dcterms:alternative>adenosine diphosphate</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="ADP" initial_value="1.5"/>
<variable units="flux" public_interface="in" name="HK"/>
<variable units="flux" public_interface="in" name="lpPEP"/>
<variable units="flux" public_interface="in" name="PFK"/>
<variable units="flux" public_interface="in" name="PK"/>
<variable units="flux" public_interface="in" name="storage"/>
<variable units="flux" public_interface="in" name="consum"/>
<variable units="flux" public_interface="in" name="AK"/>
<variable units="minute" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>ADP</ci>
</apply>
<apply>
<minus/>
<apply>
<plus/>
<ci>PFK</ci>
<ci>storage</ci>
<ci>HK</ci>
<ci>consum</ci>
<apply>
<times/>
<cn cellml:units="dimensionless"> 2 </cn>
<ci>AK</ci>
</apply>
</apply>
<apply>
<plus/>
<ci>PK</ci>
<ci>lpPEP</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="AMP" cmeta:id="AMP">
<rdf:RDF>
<rdf:Description rdf:about="#AMP">
<dc:title>AMP</dc:title>
<dcterms:alternative>adenosine monophosphate</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="AMP" initial_value="0.33"/>
<variable units="flux" public_interface="in" name="AK"/>
<variable units="minute" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>AMP</ci>
</apply>
<apply>
<minus/>
<ci>AK</ci>
</apply>
</apply>
</math>
</component>
<component name="CN_x_0" cmeta:id="CN_x_0">
<rdf:RDF>
<rdf:Description rdf:about="#CN_x_0">
<dc:title>CN_x_0</dc:title>
<dcterms:alternative>mixed flow concentration of cyanide</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="CN_x_0" initial_value="5.60"/>
</component>
<component name="CN_x" cmeta:id="CN_x">
<rdf:RDF>
<rdf:Description rdf:about="#CN_x">
<dc:title>CN_x</dc:title>
<dcterms:alternative>total concentration of adenosine phosphates</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="CN_x" initial_value="5.20358"/>
<variable units="flux" public_interface="in" name="lacto"/>
<variable units="flux" public_interface="in" name="inCN"/>
<variable units="minute" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>CN_x</ci>
</apply>
<apply>
<minus/>
<ci>inCN</ci>
<ci>lacto</ci>
</apply>
</apply>
</math>
</component>
<component name="ACA" cmeta:id="ACA">
<rdf:RDF>
<rdf:Description rdf:about="#ACA">
<dc:title>ACA</dc:title>
<dcterms:alternative>cytosolic acetaldehyde</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="ACA" initial_value="1.48153"/>
<variable units="flux" public_interface="in" name="difACA"/>
<variable units="flux" public_interface="in" name="PDC"/>
<variable units="flux" public_interface="in" name="ADH"/>
<variable units="minute" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>ACA</ci>
</apply>
<apply>
<minus/>
<ci>PDC</ci>
<apply>
<plus/>
<apply>
<times/>
<cn cellml:units="dimensionless"> 59 </cn>
<ci>difACA</ci>
</apply>
<ci>ADH</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="ACA_x" cmeta:id="ACA_x">
<rdf:RDF>
<rdf:Description rdf:about="#ACA_x">
<dc:title>ACA_x</dc:title>
<dcterms:alternative>extracellular acetaldehyde</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="ACA_x" initial_value="1.28836"/>
<variable units="flux" public_interface="in" name="lacto"/>
<variable units="flux" public_interface="in" name="difACA"/>
<variable units="flux" public_interface="in" name="outACA"/>
<variable units="minute" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>ACA_x</ci>
</apply>
<apply>
<minus/>
<ci>difACA</ci>
<apply>
<plus/>
<ci>lacto</ci>
<ci>outACA</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="EtOH" cmeta:id="EtOH">
<rdf:RDF>
<rdf:Description rdf:about="#EtOH">
<dc:title>EtOH</dc:title>
<dcterms:alternative>cytosolic ethanol</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="EtOH" initial_value="19.2379"/>
<variable units="flux" public_interface="in" name="difEtOH"/>
<variable units="flux" public_interface="in" name="ADH"/>
<variable units="minute" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>EtOH</ci>
</apply>
<apply>
<minus/>
<ci>ADH</ci>
<apply>
<times/>
<cn cellml:units="dimensionless"> 59 </cn>
<ci>difEtOH</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="EtOH_x" cmeta:id="EtOH_x">
<rdf:RDF>
<rdf:Description rdf:about="#EtOH_x">
<dc:title>EtOH_x</dc:title>
<dcterms:alternative>extracellular ethanol</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="EtOH_x" initial_value="16.4514"/>
<variable units="flux" public_interface="in" name="difEtOH"/>
<variable units="flux" public_interface="in" name="outEtOH"/>
<variable units="minute" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>EtOH_x</ci>
</apply>
<apply>
<minus/>
<ci>difEtOH</ci>
<ci>outEtOH</ci>
</apply>
</apply>
</math>
</component>
<component name="Glyc" cmeta:id="Glyc">
<rdf:RDF>
<rdf:Description rdf:about="#Glyc">
<dc:title>Glyc</dc:title>
<dcterms:alternative>cytosolic glycogen</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="Glyc" initial_value="4.196"/>
<variable units="flux" public_interface="in" name="difGlyc"/>
<variable units="flux" public_interface="in" name="lpGlyc"/>
<variable units="minute" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>Glyc</ci>
</apply>
<apply>
<minus/>
<ci>lpGlyc</ci>
<apply>
<times/>
<cn cellml:units="dimensionless"> 59 </cn>
<ci>difGlyc</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="Glyc_x" cmeta:id="Glyc_x">
<rdf:RDF>
<rdf:Description rdf:about="#Glyc_x">
<dc:title>Glyc_x</dc:title>
<dcterms:alternative>extracellular glycogen</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="Glyc_x" initial_value="1.68478"/>
<variable units="flux" public_interface="in" name="difGlyc"/>
<variable units="flux" public_interface="in" name="outGlyc"/>
<variable units="minute" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>Glyc_x</ci>
</apply>
<apply>
<minus/>
<ci>difGlyc</ci>
<ci>outGlyc</ci>
</apply>
</apply>
</math>
</component>
<component name="NADH" cmeta:id="NADH">
<rdf:RDF>
<rdf:Description rdf:about="#NADH">
<dc:title>NADH</dc:title>
<dcterms:alternative>nicotinamide adenine dinucleotide</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="NADH" initial_value="0.33"/>
<variable units="flux" public_interface="in" name="GAPDH"/>
<variable units="flux" public_interface="in" name="ADH"/>
<variable units="flux" public_interface="in" name="lpGlyc"/>
<variable units="minute" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>NADH</ci>
</apply>
<apply>
<minus/>
<ci>GAPDH</ci>
<apply>
<plus/>
<ci>ADH</ci>
<ci>lpGlyc</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="NAD" cmeta:id="NAD">
<rdf:RDF>
<rdf:Description rdf:about="#NAD">
<dc:title>NAD</dc:title>
<dcterms:alternative>positive nicotinamide adenine dinucleotide</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="millimolar" public_interface="out" name="NAD" initial_value="0.65"/>
<variable units="flux" public_interface="in" name="GAPDH"/>
<variable units="flux" public_interface="in" name="ADH"/>
<variable units="flux" public_interface="in" name="lpGlyc"/>
<variable units="minute" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>NAD</ci>
</apply>
<apply>
<minus/>
<apply>
<plus/>
<ci>ADH</ci>
<ci>lpGlyc</ci>
</apply>
<ci>GAPDH</ci>
</apply>
</apply>
</math>
</component>
<!--
The following components describe the reactions of the model.
-->
<component name="inGlc" cmeta:id="inGlc">
<rdf:RDF>
<rdf:Description rdf:about="#inGlc">
<dc:title>inGlc</dc:title>
<dcterms:alternative>glucose mixed flow to extracellular medium</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="inGlc"/>
<variable units="millimolar" public_interface="in" name="Glc_x_0"/>
<variable units="millimolar" public_interface="in" name="Glc_x"/>
<variable units="first_order_rate_constant" public_interface="in" name="k0"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="inGlc_calculation">
<eq/>
<ci> inGlc </ci>
<apply>
<times/>
<ci> k0 </ci>
<apply>
<minus/>
<ci> Glc_x_0 </ci>
<ci> Glc_x </ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="GlcTrans" cmeta:id="GlcTrans">
<rdf:RDF>
<rdf:Description rdf:about="#GlcTrans">
<dc:title>GlcTrans</dc:title>
<dcterms:alternative>glucose uptake</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="GlcTrans"/>
<variable units="millimolar" public_interface="in" name="Glc_x"/>
<variable units="millimolar" public_interface="in" name="Glc"/>
<variable units="millimolar" public_interface="in" name="G6P"/>
<variable units="millimolar" name="K2_Glc" initial_value="1.7"/>
<variable units="millimolar" name="K2_IG6P" initial_value="1.2"/>
<variable units="millimolar" name="K2_IIG6P" initial_value="7.2"/>
<variable units="flux" name="V_2m" initial_value="1014.96"/>
<variable units="dimensionless" name="P2" initial_value="1.0"/>
<variable units="dimensionless" public_interface="in" name="y_vol"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="GlcTrans_calculation">
<eq/>
<ci> GlcTrans </ci>
<apply>
<minus/>
<apply>
<times/>
<apply>
<divide/>
<ci> V_2m </ci>
<ci> y_vol </ci>
</apply>
<apply>
<divide/>
<apply>
<divide/>
<ci> Glc_x </ci>
<ci> K2_Glc </ci>
</apply>
<apply>
<plus/>
<cn cellml:units="dimensionless"> 1.0 </cn>
<apply>
<divide/>
<ci> Glc_x </ci>
<ci> K2_Glc </ci>
</apply>
<apply>
<times/>
<apply>
<divide/>
<apply>
<plus/>
<apply>
<times/>
<ci> P2 </ci>
<apply>
<divide/>
<ci> Glc_x </ci>
<ci> K2_Glc </ci>
</apply>
</apply>
<cn cellml:units="dimensionless"> 1.0 </cn>
</apply>
<apply>
<plus/>
<apply>
<times/>
<ci> P2 </ci>
<apply>
<divide/>
<ci> Glc </ci>
<ci> K2_Glc </ci>
</apply>
</apply>
<cn cellml:units="dimensionless"> 1.0 </cn>
</apply>
</apply>
<apply>
<plus/>
<cn cellml:units="dimensionless"> 1.0 </cn>
<apply>
<divide/>
<ci> Glc </ci>
<ci> K2_Glc </ci>
</apply>
<apply>
<divide/>
<ci> G6P </ci>
<ci> K2_IG6P </ci>
</apply>
<apply>
<divide/>
<apply>
<times/>
<ci> Glc </ci>
<ci> G6P </ci>
</apply>
<apply>
<times/>
<ci> K2_Glc </ci>
<ci> K2_IIG6P </ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply>
<times/>
<apply>
<divide/>
<ci> V_2m </ci>
<ci> y_vol </ci>
</apply>
<apply>
<divide/>
<apply>
<divide/>
<ci> Glc </ci>
<ci> K2_Glc </ci>
</apply>
<apply>
<plus/>
<cn cellml:units="dimensionless"> 1.0 </cn>
<apply>
<divide/>
<ci> Glc </ci>
<ci> K2_Glc </ci>
</apply>
<apply>
<times/>
<apply>
<divide/>
<apply>
<plus/>
<apply>
<times/>
<ci> P2 </ci>
<apply>
<divide/>
<ci> Glc </ci>
<ci> K2_Glc </ci>
</apply>
</apply>
<cn cellml:units="dimensionless"> 1.0 </cn>
</apply>
<apply>
<plus/>
<apply>
<times/>
<ci> P2 </ci>
<apply>
<divide/>
<ci> Glc_x </ci>
<ci> K2_Glc </ci>
</apply>
</apply>
<cn cellml:units="dimensionless"> 1.0 </cn>
</apply>
</apply>
<apply>
<plus/>
<cn cellml:units="dimensionless"> 1.0 </cn>
<apply>
<divide/>
<ci> Glc_x </ci>
<ci> K2_Glc </ci>
</apply>
</apply>
</apply>
<apply>
<divide/>
<ci> G6P </ci>
<ci> K2_IG6P </ci>
</apply>
<apply>
<divide/>
<apply>
<times/>
<ci> Glc </ci>
<ci> G6P </ci>
</apply>
<apply>
<times/>
<ci> K2_Glc </ci>
<ci> K2_IIG6P </ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="HK" cmeta:id="HK">
<rdf:RDF>
<rdf:Description rdf:about="#HK">
<dc:title>HK</dc:title>
<dcterms:alternative>hexokinase</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="HK"/>
<variable units="millimolar" public_interface="in" name="Glc"/>
<variable units="millimolar" public_interface="in" name="ATP"/>
<variable units="millimolar" name="K3_DGlc" initial_value="0.37"/>
<variable units="millimolar" name="K3_Glc" initial_value="0.0"/>
<variable units="millimolar" name="K3_ATP" initial_value="0.1"/>
<variable units="flux" name="V_3m" initial_value="51.7547"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="HK_calculation">
<eq/>
<ci> HK </ci>
<apply>
<divide/>
<apply>
<times/>
<ci> V_3m </ci>
<ci> ATP </ci>
<ci> Glc </ci>
</apply>
<apply>
<plus/>
<apply>
<times/>
<ci> K3_DGlc </ci>
<ci> K3_ATP </ci>
</apply>
<apply>
<times/>
<ci> K3_Glc </ci>
<ci> ATP </ci>
</apply>
<apply>
<times/>
<ci> K3_ATP </ci>
<ci> Glc </ci>
</apply>
<apply>
<times/>
<ci> Glc </ci>
<ci> ATP </ci>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="PGI" cmeta:id="PGI">
<rdf:RDF>
<rdf:Description rdf:about="#PGI">
<dc:title>PGI</dc:title>
<dcterms:alternative>phosphoglucoisomerase</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="PGI"/>
<variable units="millimolar" public_interface="in" name="G6P"/>
<variable units="millimolar" public_interface="in" name="F6P"/>
<variable units="flux" name="V_4m" initial_value="496.042"/>
<variable units="millimolar" name="K4_G6P" initial_value="0.8"/>
<variable units="millimolar" name="K4_F6P" initial_value="0.15"/>
<variable units="dimensionless" name="K4_eq" initial_value="0.13"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="PGI_calculation">
<eq/>
<ci> PGI </ci>
<apply>
<minus/>
<apply>
<divide/>
<apply>
<times/>
<ci> V_4m </ci>
<ci> G6P </ci>
</apply>
<apply>
<plus/>
<ci> K4_G6P </ci>
<ci> G6P </ci>
<apply>
<times/>
<apply>
<divide/>
<ci> K4_G6P </ci>
<ci> K4_F6P </ci>
</apply>
<ci> F6P </ci>
</apply>
</apply>
</apply>
<apply>
<divide/>
<apply>
<times/>
<ci> V_4m </ci>
<apply>
<divide/>
<ci> F6P </ci>
<ci> K4_eq </ci>
</apply>
</apply>
<apply>
<plus/>
<ci> K4_G6P </ci>
<ci> G6P </ci>
<apply>
<times/>
<apply>
<divide/>
<ci> K4_G6P </ci>
<ci> K4_F6P </ci>
</apply>
<ci> F6P </ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="PFK" cmeta:id="PFK">
<rdf:RDF>
<rdf:Description rdf:about="#PFK">
<dc:title>PFK</dc:title>
<dcterms:alternative>phosphofructokinase</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="PFK"/>
<variable units="millimolar" public_interface="in" name="F6P"/>
<variable units="millimolar" public_interface="in" name="ATP"/>
<variable units="millimolar" public_interface="in" name="AMP"/>
<variable units="millimolar2" name="K5" initial_value="0.021"/>
<variable units="dimensionless" name="kappa5" initial_value="0.15"/>
<variable units="flux" name="V_5m" initial_value="45.4327"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="PFK_calculation">
<eq/>
<ci> PFK </ci>
<apply>
<divide/>
<apply>
<times/>
<ci> V_5m </ci>
<apply>
<power/>
<ci> F6P </ci>
<cn cellml:units="dimensionless"> 2.0 </cn>
</apply>
</apply>
<apply>
<plus/>
<apply>
<times/>
<ci> K5 </ci>
<apply>
<plus/>
<cn cellml:units="dimensionless"> 1.0 </cn>
<apply>
<times/>
<ci> kappa5 </ci>
<apply>
<divide/>
<ci> ATP </ci>
<ci> AMP </ci>
</apply>
<apply>
<divide/>
<ci> ATP </ci>
<ci> AMP </ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<power/>
<ci> F6P </ci>
<cn cellml:units="dimensionless"> 2.0 </cn>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="ALD" cmeta:id="ALD">
<rdf:RDF>
<rdf:Description rdf:about="#ALD">
<dc:title>ALD</dc:title>
<dcterms:alternative>aldolase</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="ALD"/>
<variable units="millimolar" public_interface="in" name="GAP"/>
<variable units="millimolar" public_interface="in" name="DHAP"/>
<variable units="millimolar" public_interface="in" name="FBP"/>
<variable units="millimolar" name="K6_eq" initial_value="0.081"/>
<variable units="millimolar" name="K6_FBP" initial_value="0.3"/>
<variable units="millimolar" name="K6_DHAP" initial_value="2.0"/>
<variable units="millimolar" name="K6_GAP" initial_value="4.0"/>
<variable units="millimolar" name="K6_IGAP" initial_value="10.0"/>
<variable units="flux" name="V_6r" initial_value="1.10391E4"/>
<variable units="flux" name="V_6f" initial_value="2.20782E3"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="ALD_calculation">
<eq/>
<ci> ALD </ci>
<apply>
<minus/>
<apply>
<divide/>
<apply>
<times/>
<ci> V_6f </ci>
<ci> FBP </ci>
</apply>
<apply>
<plus/>
<ci> K6_FBP </ci>
<ci> FBP </ci>
<apply>
<divide/>
<apply>
<times/>
<ci> GAP </ci>
<ci> K6_DHAP </ci>
<ci> V_6f </ci>
</apply>
<apply>
<times/>
<ci> K6_eq </ci>
<ci> V_6r </ci>
</apply>
</apply>
<apply>
<divide/>
<apply>
<times/>
<ci> DHAP </ci>
<ci> K6_GAP </ci>
<ci> V_6f </ci>
</apply>
<apply>
<times/>
<ci> K6_eq </ci>
<ci> V_6r </ci>
</apply>
</apply>
<apply>
<divide/>
<apply>
<times/>
<ci> FBP </ci>
<ci> GAP </ci>
</apply>
<ci> K6_IGAP </ci>
</apply>
<apply>
<divide/>
<apply>
<times/>
<ci> GAP </ci>
<ci> DHAP </ci>
<ci> V_6f </ci>
</apply>
<apply>
<times/>
<ci> K6_eq </ci>
<ci> V_6r </ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<divide/>
<apply>
<times/>
<ci> V_6f </ci>
<apply>
<divide/>
<apply>
<times/>
<ci> GAP </ci>
<ci> DHAP </ci>
</apply>
<ci> K6_eq </ci>
</apply>
</apply>
<apply>
<plus/>
<ci> K6_FBP </ci>
<ci> FBP </ci>
<apply>
<divide/>
<apply>
<times/>
<ci> GAP </ci>
<ci> K6_DHAP </ci>
<ci> V_6f </ci>
</apply>
<apply>
<times/>
<ci> K6_eq </ci>
<ci> V_6r </ci>
</apply>
</apply>
<apply>
<divide/>
<apply>
<times/>
<ci> DHAP </ci>
<ci> K6_GAP </ci>
<ci> V_6f </ci>
</apply>
<apply>
<times/>
<ci> K6_eq </ci>
<ci> V_6r </ci>
</apply>
</apply>
<apply>
<divide/>
<apply>
<times/>
<ci> FBP </ci>
<ci> GAP </ci>
</apply>
<ci> K6_IGAP </ci>
</apply>
<apply>
<divide/>
<apply>
<times/>
<ci> GAP </ci>
<ci> DHAP </ci>
<ci> V_6f </ci>
</apply>
<apply>
<times/>
<ci> K6_eq </ci>
<ci> V_6r </ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="TIM" cmeta:id="TIM">
<rdf:RDF>
<rdf:Description rdf:about="#TIM">
<dc:title>TIM</dc:title>
<dcterms:alternative>triosephosphate isomerase</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="TIM"/>
<variable units="millimolar" public_interface="in" name="GAP"/>
<variable units="millimolar" public_interface="in" name="DHAP"/>
<variable units="dimensionless" name="K7_eq" initial_value="0.055"/>
<variable units="millimolar" name="K7_DHAP" initial_value="1.23"/>
<variable units="millimolar" name="K7_GAP" initial_value="1.27"/>
<variable units="flux" name="V_7m" initial_value="1.16365E2"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="TIM_calculation">
<eq/>
<ci> TIM </ci>
<apply>
<minus/>
<apply>
<divide/>
<apply>
<times/>
<ci> V_7m </ci>
<ci> DHAP </ci>
</apply>
<apply>
<plus/>
<ci> K7_DHAP </ci>
<ci> DHAP </ci>
<apply>
<times/>
<apply>
<divide/>
<ci> K7_DHAP </ci>
<ci> K7_GAP </ci>
</apply>
<ci> GAP </ci>
</apply>
</apply>
</apply>
<apply>
<divide/>
<apply>
<times/>
<ci> V_7m </ci>
<apply>
<divide/>
<ci> GAP </ci>
<ci> K7_eq </ci>
</apply>
</apply>
<apply>
<plus/>
<ci> K7_DHAP </ci>
<ci> DHAP </ci>
<apply>
<times/>
<apply>
<divide/>
<ci> K7_DHAP </ci>
<ci> K7_GAP </ci>
</apply>
<ci> GAP </ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="GAPDH" cmeta:id="GAPDH">
<rdf:RDF>
<rdf:Description rdf:about="#GAPDH">
<dc:title>GAPDH</dc:title>
<dcterms:alternative>glyceraldehyde 3-phosphate dehydrogenase</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="GAPDH"/>
<variable units="millimolar" public_interface="in" name="GAP"/>
<variable units="millimolar" public_interface="in" name="NAD"/>
<variable units="millimolar" public_interface="in" name="NADH"/>
<variable units="millimolar" public_interface="in" name="BPG"/>
<variable units="millimolar" name="K8_NAD" initial_value="0.1"/>
<variable units="millimolar" name="K8_NADH" initial_value="0.06"/>
<variable units="millimolar" name="K8_GAP" initial_value="0.6"/>
<variable units="millimolar" name="K8_BPG" initial_value="0.01"/>
<variable units="dimensionless" name="K8_eq" initial_value="0.0055"/>
<variable units="flux" name="V_8m" initial_value="8.33858E2"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="GAPDH_calculation">
<eq/>
<ci> GAPDH </ci>
<apply>
<minus/>
<apply>
<divide/>
<apply>
<times/>
<ci> V_8m </ci>
<ci> GAP </ci>
<ci> NAD </ci>
</apply>
<apply>
<times/>
<ci> K8_GAP </ci>
<ci> K8_NAD </ci>
<apply>
<plus/>
<cn cellml:units="dimensionless"> 1.0 </cn>
<apply>
<divide/>
<ci> GAP </ci>
<ci> K8_GAP </ci>
</apply>
<apply>
<divide/>
<ci> BPG </ci>
<ci> K8_BPG </ci>
</apply>
</apply>
<apply>
<plus/>
<cn cellml:units="dimensionless"> 1.0 </cn>
<apply>
<divide/>
<ci> NAD </ci>
<ci> K8_NAD </ci>
</apply>
<apply>
<divide/>
<ci> NADH </ci>
<ci> K8_NADH </ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<divide/>
<apply>
<times/>
<ci> V_8m </ci>
<apply>
<divide/>
<apply>
<times/>
<ci> BPG </ci>
<ci> NADH </ci>
</apply>
<ci> K8_eq </ci>
</apply>
</apply>
<apply>
<times/>
<ci> K8_GAP </ci>
<ci> K8_NAD </ci>
<apply>
<plus/>
<cn cellml:units="dimensionless"> 1.0 </cn>
<apply>
<divide/>
<ci> GAP </ci>
<ci> K8_GAP </ci>
</apply>
<apply>
<divide/>
<ci> BPG </ci>
<ci> K8_BPG </ci>
</apply>
</apply>
<apply>
<plus/>
<cn cellml:units="dimensionless"> 1.0 </cn>
<apply>
<divide/>
<ci> NAD </ci>
<ci> K8_NAD </ci>
</apply>
<apply>
<divide/>
<ci> NADH </ci>
<ci> K8_NADH </ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="lpPEP" cmeta:id="lpPEP">
<rdf:RDF>
<rdf:Description rdf:about="#lpPEP">
<dc:title>lpPEP</dc:title>
<dcterms:alternative>phosphoenolpyruvate synthesis</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="lpPEP"/>
<variable units="millimolar" public_interface="in" name="PEP"/>
<variable units="millimolar" public_interface="in" name="ADP"/>
<variable units="millimolar" public_interface="in" name="ATP"/>
<variable units="millimolar" public_interface="in" name="BPG"/>
<variable units="second_order_rate_constant" name="k9f" initial_value="4.43866E5"/>
<variable units="second_order_rate_constant" name="k9r" initial_value="1.52862E3"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="lpPEP_calculation">
<eq/>
<ci> lpPEP </ci>
<apply>
<minus/>
<apply>
<times/>
<ci> k9f </ci>
<ci> BPG </ci>
<ci> ADP </ci>
</apply>
<apply>
<times/>
<ci> k9r </ci>
<ci> PEP </ci>
<ci> ATP </ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="PK" cmeta:id="PK">
<rdf:RDF>
<rdf:Description rdf:about="#PK">
<dc:title>PK</dc:title>
<dcterms:alternative>pyruvate kinase</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="PK"/>
<variable units="millimolar" public_interface="in" name="PEP"/>
<variable units="millimolar" public_interface="in" name="ADP"/>
<variable units="millimolar" name="K10_PEP" initial_value="0.2"/>
<variable units="millimolar" name="K10_ADP" initial_value="0.17"/>
<variable units="flux" name="V_10m" initial_value="3.43096E2"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="PK_calculation">
<eq/>
<ci> PK </ci>
<apply>
<divide/>
<apply>
<times/>
<ci> V_10m </ci>
<ci> ADP </ci>
<ci> PEP </ci>
</apply>
<apply>
<times/>
<apply>
<plus/>
<ci> K10_PEP </ci>
<ci> PEP </ci>
</apply>
<apply>
<plus/>
<ci> K10_ADP </ci>
<ci> ADP </ci>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="PDC" cmeta:id="PDC">
<rdf:RDF>
<rdf:Description rdf:about="#PDC">
<dc:title>PDC</dc:title>
<dcterms:alternative>pyruvate decarboxylase</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="PDC"/>
<variable units="millimolar" public_interface="in" name="Pyr"/>
<variable units="millimolar" name="K11" initial_value="0.3"/>
<variable units="flux" name="V_11m" initial_value="5.31328E1"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="PDC_calculation">
<eq/>
<ci> PDC </ci>
<apply>
<divide/>
<apply>
<times/>
<ci> V_11m </ci>
<ci> Pyr </ci>
</apply>
<apply>
<plus/>
<ci> K11 </ci>
<ci> Pyr </ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="ADH" cmeta:id="ADH">
<rdf:RDF>
<rdf:Description rdf:about="#ADH">
<dc:title>ADH</dc:title>
<dcterms:alternative>alcohol dehydrogenase</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="ADH"/>
<variable units="millimolar" public_interface="in" name="NADH"/>
<variable units="millimolar" public_interface="in" name="ACA"/>
<variable units="millimolar" name="K12_NADH" initial_value="0.1"/>
<variable units="millimolar" name="K12_ACA" initial_value="0.71"/>
<variable units="flux" name="V_12m" initial_value="8.98023E1"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="ADH_calculation">
<eq/>
<ci> ADH </ci>
<apply>
<divide/>
<apply>
<times/>
<ci> V_12m </ci>
<ci> ACA </ci>
<ci> NADH </ci>
</apply>
<apply>
<times/>
<apply>
<plus/>
<ci> K12_NADH </ci>
<ci> NADH </ci>
</apply>
<apply>
<plus/>
<ci> K12_ACA </ci>
<ci> ACA </ci>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="outEtOH" cmeta:id="outEtOH">
<rdf:RDF>
<rdf:Description rdf:about="#outEtOH">
<dc:title>outEtOH</dc:title>
<dcterms:alternative>ethanol flow</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="outEtOH"/>
<variable units="millimolar" public_interface="in" name="EtOH_x"/>
<variable units="first_order_rate_constant" public_interface="in" name="k0"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="outEtOH_calculation">
<eq/>
<ci> outEtOH </ci>
<apply>
<times/>
<ci> k0 </ci>
<ci> EtOH_x </ci>
</apply>
</apply>
</math>
</component>
<component name="difEtOH" cmeta:id="difEtOH">
<rdf:RDF>
<rdf:Description rdf:about="#difEtOH">
<dc:title>difEtOH</dc:title>
<dcterms:alternative>ethanol out</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="difEtOH"/>
<variable units="first_order_rate_constant" name="k13" initial_value="16.72"/>
<variable units="millimolar" public_interface="in" name="EtOH_x"/>
<variable units="millimolar" public_interface="in" name="EtOH"/>
<variable units="dimensionless" public_interface="in" name="y_vol"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="difEtOH_calculation">
<eq/>
<ci> difEtOH </ci>
<apply>
<times/>
<apply>
<divide/>
<ci> k13 </ci>
<ci> y_vol </ci>
</apply>
<apply>
<minus/>
<ci> EtOH </ci>
<ci> EtOH_x </ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="lpGlyc" cmeta:id="lpGlyc">
<rdf:RDF>
<rdf:Description rdf:about="#lpGlyc">
<dc:title>lpGlyc</dc:title>
<dcterms:alternative>glycerol synthesis</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="lpGlyc"/>
<variable units="millimolar" public_interface="in" name="NAD"/>
<variable units="millimolar" public_interface="in" name="NADH"/>
<variable units="millimolar" public_interface="in" name="DHAP"/>
<variable units="millimolar" name="K15_NADH" initial_value="0.13"/>
<variable units="millimolar" name="K15_INADH" initial_value="0.034"/>
<variable units="millimolar" name="K15_INAD" initial_value="0.13"/>
<variable units="millimolar" name="K15_DHAP" initial_value="25.0"/>
<variable units="flux" name="V_15m" initial_value="8.14797E1"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="lpGlyc_calculation">
<eq/>
<ci> lpGlyc </ci>
<apply>
<divide/>
<apply>
<times/>
<ci> V_15m </ci>
<ci> DHAP </ci>
</apply>
<apply>
<plus/>
<apply>
<times/>
<ci> K15_DHAP </ci>
<apply>
<plus/>
<cn cellml:units="dimensionless"> 1.0 </cn>
<apply>
<times/>
<apply>
<divide/>
<ci> K15_INADH </ci>
<ci> NADH </ci>
</apply>
<apply>
<plus/>
<cn cellml:units="dimensionless"> 1.0 </cn>
<apply>
<divide/>
<ci> NAD </ci>
<ci> K15_INAD </ci>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply>
<times/>
<ci> DHAP </ci>
<apply>
<plus/>
<cn cellml:units="dimensionless"> 1.0 </cn>
<apply>
<times/>
<apply>
<divide/>
<ci> K15_NADH </ci>
<ci> NADH </ci>
</apply>
<apply>
<plus/>
<cn cellml:units="dimensionless"> 1.0 </cn>
<apply>
<divide/>
<ci> NAD </ci>
<ci> K15_INAD </ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="outGlyc" cmeta:id="outGlyc">
<rdf:RDF>
<rdf:Description rdf:about="#outGlyc">
<dc:title>outGlyc</dc:title>
<dcterms:alternative>glycerol flow</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="outGlyc"/>
<variable units="millimolar" public_interface="in" name="Glyc_x"/>
<variable units="first_order_rate_constant" public_interface="in" name="k0"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="outGlyc_calculation">
<eq/>
<ci> outGlyc </ci>
<apply>
<times/>
<ci> k0 </ci>
<ci> Glyc_x </ci>
</apply>
</apply>
</math>
</component>
<component name="difGlyc" cmeta:id="difGlyc">
<rdf:RDF>
<rdf:Description rdf:about="#difGlyc">
<dc:title>difGlyc</dc:title>
<dcterms:alternative>glycerol out</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="difGlyc"/>
<variable units="first_order_rate_constant" name="k16" initial_value="1.9"/>
<variable units="millimolar" public_interface="in" name="Glyc_x"/>
<variable units="millimolar" public_interface="in" name="Glyc"/>
<variable units="dimensionless" public_interface="in" name="y_vol"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="difGlyc_calculation">
<eq/>
<ci> difGlyc </ci>
<apply>
<times/>
<apply>
<divide/>
<ci> k16 </ci>
<ci> y_vol </ci>
</apply>
<apply>
<minus/>
<ci> Glyc </ci>
<ci> Glyc_x </ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="outACA" cmeta:id="outACA">
<rdf:RDF>
<rdf:Description rdf:about="#outACA">
<dc:title>outACA</dc:title>
<dcterms:alternative>acetaldehyde flow</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="outACA"/>
<variable units="millimolar" public_interface="in" name="ACA_x"/>
<variable units="first_order_rate_constant" public_interface="in" name="k0"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="outACA_calculation">
<eq/>
<ci> outACA </ci>
<apply>
<times/>
<ci> k0 </ci>
<ci> ACA_x </ci>
</apply>
</apply>
</math>
</component>
<component name="difACA" cmeta:id="difACA">
<rdf:RDF>
<rdf:Description rdf:about="#difACA">
<dc:title>difACA</dc:title>
<dcterms:alternative>acetaldehyde out</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="difACA"/>
<variable units="millimolar" public_interface="in" name="ACA"/>
<variable units="millimolar" public_interface="in" name="ACA_x"/>
<variable units="dimensionless" public_interface="in" name="y_vol"/>
<variable units="first_order_rate_constant" name="k18" initial_value="24.7"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="difACA_calculation">
<eq/>
<ci> difACA </ci>
<apply>
<times/>
<apply>
<divide/>
<ci> k18 </ci>
<ci> y_vol </ci>
</apply>
<apply>
<minus/>
<ci> ACA </ci>
<ci> ACA_x </ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="lacto" cmeta:id="lacto">
<rdf:RDF>
<rdf:Description rdf:about="#lacto">
<dc:title>lacto</dc:title>
<dcterms:alternative>cyanide-acetaldehyde flow</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="lacto"/>
<variable units="millimolar" public_interface="in" name="ACA_x"/>
<variable units="millimolar" public_interface="in" name="CN_x"/>
<variable units="second_order_rate_constant" name="k20" initial_value="2.83828E-3"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="lacto_calculation">
<eq/>
<ci> lacto </ci>
<apply>
<times/>
<ci> k20 </ci>
<ci> ACA_x </ci>
<ci> CN_x </ci>
</apply>
</apply>
</math>
</component>
<component name="inCN" cmeta:id="inCN">
<rdf:RDF>
<rdf:Description rdf:about="#inCN">
<dc:title>inCN</dc:title>
<dcterms:alternative>cyanide flow</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="inCN"/>
<variable units="millimolar" public_interface="in" name="CN_x_0"/>
<variable units="millimolar" public_interface="in" name="CN_x"/>
<variable units="first_order_rate_constant" public_interface="in" name="k0"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="inCN_calculation">
<eq/>
<ci> inCN </ci>
<apply>
<times/>
<ci> k0 </ci>
<apply>
<minus/>
<ci> CN_x_0 </ci>
<ci> CN_x </ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="storage" cmeta:id="storage">
<rdf:RDF>
<rdf:Description rdf:about="#storage">
<dc:title>storage</dc:title>
<dcterms:alternative>storage</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="storage"/>
<variable units="millimolar" public_interface="in" name="ATP"/>
<variable units="millimolar" public_interface="in" name="G6P"/>
<variable units="second_order_rate_constant" name="k22" initial_value="2.25932"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="storage_calculation">
<eq/>
<ci> storage </ci>
<apply>
<times/>
<ci> k22 </ci>
<ci> ATP </ci>
<ci> G6P </ci>
</apply>
</apply>
</math>
</component>
<component name="consum" cmeta:id="consum">
<rdf:RDF>
<rdf:Description rdf:about="#consum">
<dc:title>consum</dc:title>
<dcterms:alternative>ATP consumption</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="consum"/>
<variable units="millimolar" public_interface="in" name="ATP"/>
<variable units="first_order_rate_constant" name="k23" initial_value="3.20760"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="consum_calculation">
<eq/>
<ci> consum </ci>
<apply>
<times/>
<ci> k23 </ci>
<ci> ATP </ci>
</apply>
</apply>
</math>
</component>
<component name="AK" cmeta:id="AK">
<rdf:RDF>
<rdf:Description rdf:about="#AK">
<dc:title>AK</dc:title>
<dcterms:alternative>adenylate kinase</dcterms:alternative>
</rdf:Description>
</rdf:RDF>
<variable units="flux" public_interface="out" name="AK"/>
<variable units="millimolar" public_interface="in" name="ATP"/>
<variable units="millimolar" public_interface="in" name="ADP"/>
<variable units="millimolar" public_interface="in" name="AMP"/>
<variable units="second_order_rate_constant" name="k24f" initial_value="4.32900E2"/>
<variable units="second_order_rate_constant" name="k24r" initial_value="1.33333E2"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="AK_calculation">
<eq/>
<ci> AK </ci>
<apply>
<minus/>
<apply>
<times/>
<ci> k24f </ci>
<ci> AMP </ci>
<ci> ATP </ci>
</apply>
<apply>
<times/>
<ci> k24r </ci>
<apply>
<power/>
<ci> ADP </ci>
<cn cellml:units="dimensionless"> 2.0 </cn>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="model_parameters">
<variable units="dimensionless" public_interface="out" name="y_vol" initial_value="59.0"/>
<variable units="first_order_rate_constant" public_interface="out" name="k0" initial_value="0.048"/>
</component>
<connection>
<map_components component_2="inGlc" component_1="Glc_x_0"/>
<map_variables variable_2="Glc_x_0" variable_1="Glc_x_0"/>
</connection>
<connection>
<map_components component_2="inGlc" component_1="Glc_x"/>
<map_variables variable_2="Glc_x" variable_1="Glc_x"/>
<map_variables variable_2="inGlc" variable_1="inGlc"/>
</connection>
<connection>
<map_components component_2="inGlc" component_1="model_parameters"/>
<map_variables variable_2="k0" variable_1="k0"/>
</connection>
<connection>
<map_components component_2="GlcTrans" component_1="Glc_x"/>
<map_variables variable_2="Glc_x" variable_1="Glc_x"/>
<map_variables variable_2="GlcTrans" variable_1="GlcTrans"/>
</connection>
<connection>
<map_components component_2="GlcTrans" component_1="Glc"/>
<map_variables variable_2="Glc" variable_1="Glc"/>
<map_variables variable_2="GlcTrans" variable_1="GlcTrans"/>
</connection>
<connection>
<map_components component_2="GlcTrans" component_1="model_parameters"/>
<map_variables variable_2="y_vol" variable_1="y_vol"/>
</connection>
<connection>
<map_components component_2="HK" component_1="Glc"/>
<map_variables variable_2="Glc" variable_1="Glc"/>
<map_variables variable_2="HK" variable_1="HK"/>
</connection>
<connection>
<map_components component_2="HK" component_1="G6P"/>
<map_variables variable_2="HK" variable_1="HK"/>
</connection>
<connection>
<map_components component_2="PGI" component_1="G6P"/>
<map_variables variable_2="G6P" variable_1="G6P"/>
<map_variables variable_2="PGI" variable_1="PGI"/>
</connection>
<connection>
<map_components component_2="GlcTrans" component_1="G6P"/>
<map_variables variable_2="G6P" variable_1="G6P"/>
</connection>
<connection>
<map_components component_2="storage" component_1="G6P"/>
<map_variables variable_2="G6P" variable_1="G6P"/>
<map_variables variable_2="storage" variable_1="storage"/>
</connection>
<connection>
<map_components component_2="PGI" component_1="F6P"/>
<map_variables variable_2="F6P" variable_1="F6P"/>
<map_variables variable_2="PGI" variable_1="PGI"/>
</connection>
<connection>
<map_components component_2="PFK" component_1="F6P"/>
<map_variables variable_2="F6P" variable_1="F6P"/>
<map_variables variable_2="PFK" variable_1="PFK"/>
</connection>
<connection>
<map_components component_2="PFK" component_1="FBP"/>
<map_variables variable_2="PFK" variable_1="PFK"/>
</connection>
<connection>
<map_components component_2="ALD" component_1="FBP"/>
<map_variables variable_2="FBP" variable_1="FBP"/>
<map_variables variable_2="ALD" variable_1="ALD"/>
</connection>
<connection>
<map_components component_2="ALD" component_1="GAP"/>
<map_variables variable_2="GAP" variable_1="GAP"/>
<map_variables variable_2="ALD" variable_1="ALD"/>
</connection>
<connection>
<map_components component_2="TIM" component_1="GAP"/>
<map_variables variable_2="GAP" variable_1="GAP"/>
<map_variables variable_2="TIM" variable_1="TIM"/>
</connection>
<connection>
<map_components component_2="GAPDH" component_1="GAP"/>
<map_variables variable_2="GAP" variable_1="GAP"/>
<map_variables variable_2="GAPDH" variable_1="GAPDH"/>
</connection>
<connection>
<map_components component_2="ALD" component_1="DHAP"/>
<map_variables variable_2="DHAP" variable_1="DHAP"/>
<map_variables variable_2="ALD" variable_1="ALD"/>
</connection>
<connection>
<map_components component_2="TIM" component_1="DHAP"/>
<map_variables variable_2="DHAP" variable_1="DHAP"/>
<map_variables variable_2="TIM" variable_1="TIM"/>
</connection>
<connection>
<map_components component_2="lpGlyc" component_1="DHAP"/>
<map_variables variable_2="DHAP" variable_1="DHAP"/>
<map_variables variable_2="lpGlyc" variable_1="lpGlyc"/>
</connection>
<connection>
<map_components component_2="lpGlyc" component_1="Glyc"/>
<map_variables variable_2="lpGlyc" variable_1="lpGlyc"/>
</connection>
<connection>
<map_components component_2="outGlyc" component_1="Glyc_x"/>
<map_variables variable_2="Glyc_x" variable_1="Glyc_x"/>
<map_variables variable_2="outGlyc" variable_1="outGlyc"/>
</connection>
<connection>
<map_components component_2="outGlyc" component_1="model_parameters"/>
<map_variables variable_2="k0" variable_1="k0"/>
</connection>
<connection>
<map_components component_2="difGlyc" component_1="Glyc_x"/>
<map_variables variable_2="Glyc_x" variable_1="Glyc_x"/>
<map_variables variable_2="difGlyc" variable_1="difGlyc"/>
</connection>
<connection>
<map_components component_2="difGlyc" component_1="Glyc"/>
<map_variables variable_2="Glyc" variable_1="Glyc"/>
<map_variables variable_2="difGlyc" variable_1="difGlyc"/>
</connection>
<connection>
<map_components component_2="difGlyc" component_1="model_parameters"/>
<map_variables variable_2="y_vol" variable_1="y_vol"/>
</connection>
<connection>
<map_components component_2="GAPDH" component_1="BPG"/>
<map_variables variable_2="GAPDH" variable_1="GAPDH"/>
<map_variables variable_2="BPG" variable_1="BPG"/>
</connection>
<connection>
<map_components component_2="lpPEP" component_1="BPG"/>
<map_variables variable_2="lpPEP" variable_1="lpPEP"/>
<map_variables variable_2="BPG" variable_1="BPG"/>
</connection>
<connection>
<map_components component_2="lpPEP" component_1="PEP"/>
<map_variables variable_2="PEP" variable_1="PEP"/>
<map_variables variable_2="lpPEP" variable_1="lpPEP"/>
</connection>
<connection>
<map_components component_2="PK" component_1="PEP"/>
<map_variables variable_2="PEP" variable_1="PEP"/>
<map_variables variable_2="PK" variable_1="PK"/>
</connection>
<connection>
<map_components component_2="PK" component_1="Pyr"/>
<map_variables variable_2="PK" variable_1="PK"/>
</connection>
<connection>
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