Chaste Commit::baa90ac2819b962188b7562f2326be23c47859a7
Mirams2010WntOdeSystem.cpp
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34*/
35#include "Mirams2010WntOdeSystem.hpp"
36#include "CellwiseOdeSystemInformation.hpp"
37
38// These #includes are needed for the constructor and EvaluateYDerivatives()
39#include "ApcOneHitCellMutationState.hpp"
40#include "ApcTwoHitCellMutationState.hpp"
41#include "BetaCateninOneHitCellMutationState.hpp"
42#include "CellLabel.hpp"
43#include "WildTypeCellMutationState.hpp"
44
46 boost::shared_ptr<AbstractCellMutationState> pMutationState,
47 std::vector<double> stateVariables)
49 mpMutationState(pMutationState),
50 mWntLevel(wntLevel)
51{
53
62 Init(); // set up parameter values
63
64 // Set up rough guesses for the initial steady states in this Wnt conc.
65 double b1 = 0;
66 double b2 = 0;
67 b1 = (mA/2.0) / (((wntLevel + mB)/(mC*wntLevel + mD)) + mF);
68 if (!mpMutationState)
69 {
70 // No mutations specified
71 }
73 {
74 b2 = (mA/2.0)/mF;
75 }
76 else
77 {
78 b2 = (mA/2.0) / (((wntLevel + mB)/(mC*wntLevel + mD)) + mF);
79 }
80
83 SetDefaultInitialCondition(2, wntLevel);
84
85 if (stateVariables != std::vector<double>())
86 {
87 SetStateVariables(stateVariables);
88 }
89}
90
91void Mirams2010WntOdeSystem::SetMutationState(boost::shared_ptr<AbstractCellMutationState> pMutationState)
92{
93 mpMutationState = pMutationState;
94}
95
100
102{
103 // Initialise model parameter values
104 mA = 25.38; // nM hr^{-1}
105 mB = 0.1; // dimensionless
106 mC = 6.386; // hr
107 mD = 9.818e-2; // hr
108 mE = 1.2e3; // nM
109 mF = 1.54e-2; // hr^{-1}
110}
111
112void Mirams2010WntOdeSystem::EvaluateYDerivatives(double time, const std::vector<double>& rY, std::vector<double>& rDY)
113{
114 double x1 = rY[0];
115 double x2 = rY[1];
116 double wnt_level = rY[2];
117
118 double dx1 = 0.0;
119 double dx2 = 0.0;
120 /*
121 * The variables are
122 * 1. b = Beta-Catenin1
123 * 2. b = Beta-Catenin2
124 */
125
126 double c = mC;
127 double d = mD;
128 // Mutations take effect by altering the parameters
129 if (mpMutationState->IsType<ApcOneHitCellMutationState>()) // APC +/-
130 {
131 c = 31.87;
132 d = 0.490;
133 }
134 else if (mpMutationState->IsType<ApcTwoHitCellMutationState>()) // APC -/-
135 {
136 c = 71.21;
137 d = 1.095;
138 }
139
140 // da
141 dx1 = mA/2.0 - (((wnt_level + mB)/(c*wnt_level + d))*(mE/(mE+x1)) + mF)*x1;
142 // db
144 {
145 dx2 = mA/2.0 - mF*x2;
146 }
147 else
148 {
149 dx2 = mA/2.0 - (((wnt_level + mB)/(c*wnt_level + d))*(mE/(mE+x2)) + mF)*x2;
150 }
151
152 rDY[0] = dx1;
153 rDY[1] = dx2;
154 rDY[2] = 0.0; // do not change the Wnt level
155}
156
157const boost::shared_ptr<AbstractCellMutationState> Mirams2010WntOdeSystem::GetMutationState() const
158{
159 return mpMutationState;
160}
161
162template<>
164{
165 this->mVariableNames.push_back("Beta_Cat_Allele1");
166 this->mVariableUnits.push_back("nM");
167 this->mInitialConditions.push_back(50.0); // will be filled in later
168
169 this->mVariableNames.push_back("Beta_Cat_Allele2");
170 this->mVariableUnits.push_back("nM");
171 this->mInitialConditions.push_back(50.0); // will be filled in later
172
173 this->mVariableNames.push_back("Wnt Level");
174 this->mVariableUnits.push_back("non-dim");
175 this->mInitialConditions.push_back(0.5); // will be filled in later
176
177 this->mInitialised = true;
178}
179
181{
182 return mWntLevel;
183}
184
185// Serialization for Boost >= 1.36
#define CHASTE_CLASS_EXPORT(T)
void SetStateVariables(const std::vector< double > &rStateVariables)
void SetDefaultInitialCondition(unsigned index, double initialCondition)
boost::shared_ptr< AbstractOdeSystemInformation > mpSystemInfo
void SetMutationState(boost::shared_ptr< AbstractCellMutationState > pMutationState)
void EvaluateYDerivatives(double time, const std::vector< double > &rY, std::vector< double > &rDY)
Mirams2010WntOdeSystem(double wntLevel=0.0, boost::shared_ptr< AbstractCellMutationState > pMutationState=boost::shared_ptr< AbstractCellMutationState >(), std::vector< double > stateVariables=std::vector< double >())
const boost::shared_ptr< AbstractCellMutationState > GetMutationState() const
boost::shared_ptr< AbstractCellMutationState > mpMutationState