<?xml version="1.0" encoding="UTF-8"?>
<sbml xmlns="http://www.sbml.org/sbml/level2/version4" level="2" version="4">
<model metaid="newTNFa" id="newTNFa">
<annotation/>
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<compartment metaid="c4" id="c4" name="Damaged Neuron" size="4" units="volume" outside="default">
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<species metaid="s30" id="s30" name="L-arginine" compartment="c1" initialConcentration="0" charge="0">
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<times/>
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<times/>
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</kineticLaw>
</reaction>
<reaction metaid="re64" id="re70" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00094" species="s9"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00095" species="s46"/>
</listOfProducts>
<kineticLaw metaid="CDMT00096">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s9 </ci>
<ci> k1 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00097" id="k1" name="k1" value="0.1" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re65" id="re71" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00098" species="s46"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00099" species="s7"/>
</listOfProducts>
<kineticLaw metaid="CDMT00100">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s46 </ci>
<ci> k2 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00101" id="k1" name="k1" value="0.001" units="substance"/>
<parameter metaid="CDMT00208" id="k2" name="k2" value="0.1" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re66" id="re72" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00102" species="s9"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00103" species="s47"/>
</listOfProducts>
<kineticLaw metaid="CDMT00104">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s9 </ci>
<ci> k1 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00105" id="k1" name="k1" value="0.01" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re67" id="re73" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00106" species="s47"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00107" species="s18"/>
</listOfProducts>
<kineticLaw metaid="CDMT00108">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s47 </ci>
<ci> k1 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00109" id="k1" name="k1" value="0.01" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re69" id="re74" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00110" species="s28"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00111" species="s15"/>
</listOfProducts>
<kineticLaw metaid="CDMT00112">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s28 </ci>
<ci> k1 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00113" id="k1" name="k1" value="0.01" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re70" id="re75" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00114" species="s15"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00115" species="s48"/>
</listOfProducts>
<kineticLaw metaid="CDMT00116">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s15 </ci>
<ci> k1 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00117" id="k1" name="k1" value="0.01" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re71" id="re76" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00118" species="s48"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00119" species="s49"/>
</listOfProducts>
<kineticLaw metaid="CDMT00120">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s48 </ci>
<ci> k1 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00121" id="k1" name="k1" value="0.001" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re72" id="re77" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00122" species="s49"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00123" species="s16"/>
</listOfProducts>
<kineticLaw metaid="CDMT00124">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s49 </ci>
<ci> k1 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00125" id="k1" name="k1" value="0.001" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re75" id="re79" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00126" species="s14"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00127" species="s13"/>
</listOfProducts>
<kineticLaw metaid="CDMT00128">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s14 </ci>
<ci> k6 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00129" id="k1" name="k1" value="0.001" units="substance"/>
<parameter metaid="CDMT00200" id="k2" name="k2" value="0.1" units="substance"/>
<parameter metaid="CDMT00210" id="k3" name="k3" value="0.01" units="substance"/>
<parameter metaid="CDMT00211" id="k4" name="k4" value="0.001" units="substance"/>
<parameter metaid="CDMT00214" id="k5" name="k5" value="0.1" units="substance"/>
<parameter metaid="CDMT00217" id="k6" name="k6" value="0.05" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re76" id="re80" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00130" species="s12"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00131" species="s45"/>
</listOfProducts>
<kineticLaw metaid="CDMT00132">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s12 </ci>
<ci> k1 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00133" id="k1" name="k1" value="0.0001" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re77" id="re81" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00134" species="s13"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00135" species="s45"/>
</listOfProducts>
<kineticLaw metaid="CDMT00136">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s13 </ci>
<ci> k1 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00137" id="k1" name="k1" value="0.0001" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re78" id="re82" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00138" species="s13"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00139" species="s11"/>
</listOfProducts>
<kineticLaw metaid="CDMT00140">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s13 </ci>
<ci> k3 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00141" id="k1" name="k1" value="0.01" units="substance"/>
<parameter metaid="CDMT00219" id="k2" name="k2" value="0.1" units="substance"/>
<parameter metaid="CDMT00221" id="k3" name="k3" value="0.01" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re81" id="re83" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00142" species="s2"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00143" species="s12"/>
</listOfProducts>
<kineticLaw metaid="CDMT00144">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s2 </ci>
<ci> k2 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00145" id="k1" name="k1" value="0.01" units="substance"/>
<parameter metaid="CDMT00202" id="k2" name="k2" value="0.1" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re82" id="re84" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00146" species="s12"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00147" species="s11"/>
</listOfProducts>
<kineticLaw metaid="CDMT00148">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s12 </ci>
<ci> k1 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00149" id="k1" name="k1" value="0.01" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re83" id="re85" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00150" species="s11"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00151" species="s2"/>
</listOfProducts>
<kineticLaw metaid="CDMT00152">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s11 </ci>
<ci> k5 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00153" id="k1" name="k1" value="0.001" units="substance"/>
<parameter metaid="CDMT00203" id="k2" name="k2" value="0.1" units="substance"/>
<parameter metaid="CDMT00209" id="k3" name="k3" value="0.1" units="substance"/>
<parameter metaid="CDMT00220" id="k4" name="k4" value="0.1" units="substance"/>
<parameter metaid="CDMT00222" id="k5" name="k5" value="0.01" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re84" id="re86" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00154" species="s10"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00155" species="s18"/>
</listOfProducts>
<kineticLaw metaid="CDMT00156">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s10 </ci>
<ci> k2 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00157" id="k1" name="k1" value="0.01" units="substance"/>
<parameter metaid="CDMT00218" id="k2" name="k2" value="0.1" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re85" id="re87" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00158" species="s45"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00159" species="s18"/>
</listOfProducts>
<kineticLaw metaid="CDMT00160">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s45 </ci>
<ci> k2 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00161" id="k1" name="k1" value="0.01" units="substance"/>
<parameter metaid="CDMT00201" id="k2" name="k2" value="0.1" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re86" id="re88" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00162" species="s18"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00163" species="s41"/>
</listOfProducts>
<kineticLaw metaid="CDMT00164">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s18 </ci>
<ci> k2 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00165" id="k1" name="k1" value="0.0001" units="substance"/>
<parameter metaid="CDMT00166" id="k2" name="k2" value="0.1" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re89" id="re89" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00167" species="s16"/>
<speciesReference metaid="CDMT00168" species="s56"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00169" species="s50"/>
</listOfProducts>
<kineticLaw metaid="CDMT00170">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s16 </ci>
<ci> s56 </ci>
<ci> k1 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00171" id="k1" name="k1" value="0.001" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re91" id="re91" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00172" species="s51"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00173" species="s55"/>
</listOfProducts>
<listOfModifiers>
<modifierSpeciesReference metaid="CDMT00174" species="s50"/>
</listOfModifiers>
<kineticLaw metaid="CDMT00175">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s51 </ci>
<ci> k4 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00176" id="k1" name="k1" value="0.01" units="substance"/>
<parameter metaid="CDMT00215" id="k2" name="k2" value="0.1" units="substance"/>
<parameter metaid="CDMT00237" id="k3" name="k3" value="0.1" units="substance"/>
<parameter metaid="CDMT00238" id="k4" name="k4" value="0.01" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re93" id="re93" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00177" species="s55"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00178" species="s29"/>
</listOfProducts>
<kineticLaw metaid="CDMT00179">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s55 </ci>
<ci> k1 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00180" id="k1" name="k1" value="0.01" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re94" id="re94" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00181" species="s26"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00182" species="s57"/>
</listOfProducts>
<kineticLaw metaid="CDMT00183">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s26 </ci>
<ci> k1 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00184" id="k1" name="k1" value="0.01" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re95" id="re95" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00185" species="s57"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00186" species="s27"/>
</listOfProducts>
<kineticLaw metaid="CDMT00187">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s57 </ci>
<ci> k1 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00188" id="k1" name="k1" value="5e-005" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re96" id="re96" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00189" species="s2"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00190" species="s8"/>
</listOfProducts>
<kineticLaw metaid="CDMT00191">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s2 </ci>
<ci> k3 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00192" id="k1" name="k1" value="0.011" units="substance"/>
<parameter metaid="CDMT00193" id="k2" name="k2" value="0.1" units="substance"/>
<parameter metaid="CDMT00206" id="k3" name="k3" value="0.001" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re97" id="re97" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00194" species="s8"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00195" species="s58"/>
</listOfProducts>
<kineticLaw metaid="CDMT00066">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s8 </ci>
<ci> k1 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00067" id="k1" name="k1" value="0.1" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re99" id="re99" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00227" species="s7"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00228" species="s59"/>
</listOfProducts>
<kineticLaw metaid="CDMT00068">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s7 </ci>
<ci> k2 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00069" id="k1" name="k1" value="0.1" units="substance"/>
<parameter metaid="CDMT00196" id="k2" name="k2" value="0.1" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re101" id="re101" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00197" species="s58"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00216" species="s18"/>
</listOfProducts>
<kineticLaw metaid="CDMT00223">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s58 </ci>
<ci> k1 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00224" id="k1" name="k1" value="0.1" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction metaid="re102" id="re102" reversible="false" fast="false">
<annotation/>
<listOfReactants>
<speciesReference metaid="CDMT00225" species="s59"/>
</listOfReactants>
<listOfProducts>
<speciesReference metaid="CDMT00226" species="s18"/>
</listOfProducts>
<kineticLaw metaid="CDMT00229">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> s59 </ci>
<ci> k1 </ci>
</apply>
</math>
<listOfParameters>
<parameter metaid="CDMT00230" id="k1" name="k1" value="0.1" units="substance"/>
</listOfParameters>
</kineticLaw>
</reaction>
</listOfReactions>
</model>
</sbml>