AbstractVanLeeuwen2009WntSwatCellCycleModel Class Reference

#include <AbstractVanLeeuwen2009WntSwatCellCycleModel.hpp>

Inherits AbstractWntOdeBasedCellCycleModel.

Inherited by VanLeeuwen2009WntSwatCellCycleModelHypothesisOne, and VanLeeuwen2009WntSwatCellCycleModelHypothesisTwo.

Collaboration diagram for AbstractVanLeeuwen2009WntSwatCellCycleModel:
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List of all members.

Public Member Functions

 AbstractVanLeeuwen2009WntSwatCellCycleModel ()
 AbstractVanLeeuwen2009WntSwatCellCycleModel (const AbstractVanLeeuwen2009WntSwatCellCycleModel &rOtherModel)
void Initialise ()
bool SolveOdeToTime (double currentTime)
double GetMembraneBoundBetaCateninLevel ()
double GetCytoplasmicBetaCateninLevel ()
double GetNuclearBetaCateninLevel ()
virtual void InitialiseOdeSystem (double wntConcentration, boost::shared_ptr< AbstractCellMutationState > pMutationState)=0

Private Member Functions

template<class Archive >
void save (Archive &archive, const unsigned int version) const
template<class Archive >
void load (Archive &archive, const unsigned int version)
void ChangeCellProliferativeTypeDueToCurrentBetaCateninLevel ()

Friends

class boost::serialization::access

Detailed Description

Wnt-dependent cell cycle model.

Note that this class uses C++'s default copying semantics, and so doesn't implement a copy constructor or operator=.

Definition at line 52 of file AbstractVanLeeuwen2009WntSwatCellCycleModel.hpp.

Constructor & Destructor Documentation

AbstractVanLeeuwen2009WntSwatCellCycleModel::AbstractVanLeeuwen2009WntSwatCellCycleModel (  ) 

Default constructor.

Definition at line 32 of file AbstractVanLeeuwen2009WntSwatCellCycleModel.cpp.

AbstractVanLeeuwen2009WntSwatCellCycleModel::AbstractVanLeeuwen2009WntSwatCellCycleModel ( const AbstractVanLeeuwen2009WntSwatCellCycleModel &  rOtherModel  ) 

Copy constructor.

Creates an appropriate copy of our ODE system too.

Parameters:
rOtherModel the instance being copied.

Definition at line 38 of file AbstractVanLeeuwen2009WntSwatCellCycleModel.cpp.

References AbstractOdeBasedCellCycleModel::mpOdeSystem.

Member Function Documentation

void AbstractVanLeeuwen2009WntSwatCellCycleModel::ChangeCellProliferativeTypeDueToCurrentBetaCateninLevel (  )  [private, virtual]

Called by Initialise() and UpdateCellProliferativeType() only. Updates the mpCell::mCellProliferativeType to match mpOdeSystem's beta-catenin levels

This carries out the work for UpdateCellProliferativeType(); But does not check the current time so it can be used by the initialise method.

Implements AbstractWntOdeBasedCellCycleModel.

Definition at line 48 of file AbstractVanLeeuwen2009WntSwatCellCycleModel.cpp.

References AbstractCellCycleModel::mpCell, AbstractOdeBasedCellCycleModel::mpOdeSystem, AbstractOdeSystem::rGetStateVariables(), and TissueCell::SetCellProliferativeType().

Referenced by Initialise().

double AbstractVanLeeuwen2009WntSwatCellCycleModel::GetCytoplasmicBetaCateninLevel (  ) 
Returns:
the level of cytoplasmic beta-catenin (including ubiquitinated - awaiting degradation)

Definition at line 113 of file AbstractVanLeeuwen2009WntSwatCellCycleModel.cpp.

References AbstractOdeBasedCellCycleModel::mpOdeSystem, and AbstractOdeSystem::rGetStateVariables().

Referenced by CryptSimulation2d::WriteBetaCatenin().

double AbstractVanLeeuwen2009WntSwatCellCycleModel::GetMembraneBoundBetaCateninLevel (  ) 
Returns:
the level of membrane bound beta-catenin. To be used in cell-cell adhesion calculations.

Definition at line 107 of file AbstractVanLeeuwen2009WntSwatCellCycleModel.cpp.

References AbstractOdeBasedCellCycleModel::mpOdeSystem, and AbstractOdeSystem::rGetStateVariables().

Referenced by LinearSpringWithVariableSpringConstantsForce< DIM >::VariableSpringConstantMultiplicationFactor(), and CryptSimulation2d::WriteBetaCatenin().

double AbstractVanLeeuwen2009WntSwatCellCycleModel::GetNuclearBetaCateninLevel (  ) 
Returns:
the level of nuclear beta-catenin. To be used in transcription

Definition at line 121 of file AbstractVanLeeuwen2009WntSwatCellCycleModel.cpp.

References AbstractOdeBasedCellCycleModel::mpOdeSystem, and AbstractOdeSystem::rGetStateVariables().

Referenced by CryptSimulation2d::WriteBetaCatenin().

void AbstractVanLeeuwen2009WntSwatCellCycleModel::Initialise ( void   )  [virtual]

See AbstractCellCycleModel::Initialise()

In this case we set up a new ODE system for a daughter cell.

Reimplemented from AbstractCellCycleModel.

Definition at line 69 of file AbstractVanLeeuwen2009WntSwatCellCycleModel.cpp.

References ChangeCellProliferativeTypeDueToCurrentBetaCateninLevel(), AbstractOdeSystem::GetInitialConditions(), TissueCell::GetMutationState(), AbstractWntOdeBasedCellCycleModel::GetWntLevel(), InitialiseOdeSystem(), AbstractCellCycleModel::mpCell, AbstractOdeBasedCellCycleModel::mpOdeSystem, and AbstractOdeSystem::SetStateVariables().

virtual void AbstractVanLeeuwen2009WntSwatCellCycleModel::InitialiseOdeSystem ( double  wntConcentration,
boost::shared_ptr< AbstractCellMutationState >  pMutationState 
) [pure virtual]

Pure virtual method to be implemented in concrete classes, which should should allocate the mOdeSystem variable using the appropriate hypothesis (one or two).

Parameters:
wntConcentration Wnt concentration
pMutationState Mutation state

Implemented in VanLeeuwen2009WntSwatCellCycleModelHypothesisOne, and VanLeeuwen2009WntSwatCellCycleModelHypothesisTwo.

Referenced by Initialise(), and load().

template<class Archive >
void AbstractVanLeeuwen2009WntSwatCellCycleModel::load ( Archive &  archive,
const unsigned int  version 
) [inline, private]

Load the cell cycle model and ODE system from archive.

Parameters:
archive the archive
version the archive version

Definition at line 80 of file AbstractVanLeeuwen2009WntSwatCellCycleModel.hpp.

References InitialiseOdeSystem(), and AbstractOdeBasedCellCycleModel::mpOdeSystem.

template<class Archive >
void AbstractVanLeeuwen2009WntSwatCellCycleModel::save ( Archive &  archive,
const unsigned int  version 
) const [inline, private]

Archive the cell cycle model and ODE system.

Parameters:
archive the archive
version the archive version

Definition at line 65 of file AbstractVanLeeuwen2009WntSwatCellCycleModel.hpp.

References AbstractOdeBasedCellCycleModel::mpOdeSystem.

bool AbstractVanLeeuwen2009WntSwatCellCycleModel::SolveOdeToTime ( double  currentTime  )  [virtual]

Solve the ODE to the current time.

Parameters:
currentTime the current time
Returns:
Whether a stopping event occurred.

Implements AbstractOdeBasedCellCycleModel.

Definition at line 84 of file AbstractVanLeeuwen2009WntSwatCellCycleModel.cpp.

References TissueCell::GetMutationState(), SimulationTime::GetTimeStep(), AbstractWntOdeBasedCellCycleModel::GetWntLevel(), SimulationTime::Instance(), AbstractOdeBasedCellCycleModel::mLastTime, AbstractCellCycleModel::mpCell, AbstractOdeBasedCellCycleModel::mpOdeSystem, AbstractWntOdeBasedCellCycleModel::msSolver, AbstractOdeSystem::rGetStateVariables(), AbstractIvpOdeSolver::SolveAndUpdateStateVariable(), AbstractIvpOdeSolver::StoppingEventOccurred(), and AbstractWntOdeBasedCellCycleModel::UpdateCellProliferativeType().

Friends And Related Function Documentation

friend class boost::serialization::access [friend]

Needed for serialization.

Reimplemented from AbstractWntOdeBasedCellCycleModel.

Reimplemented in VanLeeuwen2009WntSwatCellCycleModelHypothesisOne, and VanLeeuwen2009WntSwatCellCycleModelHypothesisTwo.

Definition at line 57 of file AbstractVanLeeuwen2009WntSwatCellCycleModel.hpp.

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