#include <SimpleWntCellCycleModel.hpp>

Inheritance diagram for SimpleWntCellCycleModel:

Collaboration diagram for SimpleWntCellCycleModel:

Public Member Functions
	SimpleWntCellCycleModel ()

virtual void	UpdateCellCyclePhase ()

virtual void	InitialiseDaughterCell ()

virtual AbstractCellCycleModel *	CreateCellCycleModel ()

void	SetUseCellProliferativeTypeDependentG1Duration (bool useCellProliferativeTypeDependentG1Duration=true)

virtual bool	CanCellTerminallyDifferentiate ()

double	GetWntStemThreshold ()

void	SetWntStemThreshold (double wntStemThreshold)

double	GetWntTransitThreshold ()

void	SetWntTransitThreshold (double wntTransitThreshold)

double	GetWntLabelledThreshold ()

void	SetWntLabelledThreshold (double wntLabelledThreshold)

virtual void	OutputCellCycleModelParameters (out_stream &rParamsFile)

Public Member Functions inherited from AbstractSimpleCellCycleModel
	AbstractSimpleCellCycleModel ()

virtual	~AbstractSimpleCellCycleModel ()

virtual void	ResetForDivision ()

virtual void	Initialise ()

Public Member Functions inherited from AbstractCellCycleModel
	AbstractCellCycleModel ()

virtual	~AbstractCellCycleModel ()

void	SetCell (CellPtr pCell)

CellPtr	GetCell ()

virtual void	SetBirthTime (double birthTime)

void	SetDimension (unsigned dimension)

unsigned	GetDimension ()

double	GetBirthTime () const

double	GetAge ()

virtual bool	ReadyToDivide ()

CellCyclePhase	GetCurrentCellCyclePhase ()

virtual double	GetG1Duration ()

double	GetStemCellG1Duration ()

double	GetTransitCellG1Duration ()

double	GetSG2MDuration ()

virtual double	GetSDuration ()

virtual double	GetG2Duration ()

virtual double	GetMDuration ()

virtual void	SetStemCellG1Duration (double stemCellG1Duration)

virtual void	SetTransitCellG1Duration (double transitCellG1Duration)

void	SetSDuration (double sDuration)

void	SetG2Duration (double g2Duration)

void	SetMDuration (double mDuration)

virtual double	GetAverageTransitCellCycleTime ()

virtual double	GetAverageStemCellCycleTime ()

double	GetMinimumGapDuration ()

void	SetMinimumGapDuration (double minimumGapDuration)

void	OutputCellCycleModelInfo (out_stream &rParamsFile)

Public Member Functions inherited from Identifiable
virtual	~Identifiable ()

std::string	GetIdentifier () const

Protected Member Functions
double	GetWntLevel ()

WntConcentrationType	GetWntType ()

void	SetG1Duration ()

Protected Attributes
bool	mUseCellProliferativeTypeDependentG1Duration

double	mWntStemThreshold

double	mWntTransitThreshold

double	mWntLabelledThreshold

Protected Attributes inherited from AbstractCellCycleModel
CellPtr	mpCell

double	mBirthTime

CellCyclePhase	mCurrentCellCyclePhase

double	mG1Duration

bool	mReadyToDivide

unsigned	mDimension

double	mMinimumGapDuration

double	mStemCellG1Duration

double	mTransitCellG1Duration

double	mSDuration

double	mG2Duration

double	mMDuration

Private Member Functions
template<class Archive >
void	serialize (Archive &archive, const unsigned int version)

Friends
class	boost::serialization::access

Detailed Description

Simple Wnt-dependent cell-cycle model.

Definition at line 46 of file SimpleWntCellCycleModel.hpp.

Constructor & Destructor Documentation

SimpleWntCellCycleModel::SimpleWntCellCycleModel ( )

Constructor - just a default, mBirthTime is now set in the AbstractCellCycleModel class. mG1Duration is set very high, it is set for the individual cells when InitialiseDaughterCell is called.

Definition at line 42 of file SimpleWntCellCycleModel.cpp.

Referenced by CreateCellCycleModel().

Member Function Documentation

bool SimpleWntCellCycleModel::CanCellTerminallyDifferentiate ( )

virtual

Overridden CanCellTerminallyDifferentiate() method.

Returns: whether cell can terminally differentiate

Reimplemented from AbstractCellCycleModel.

Definition at line 274 of file SimpleWntCellCycleModel.cpp.

AbstractCellCycleModel * SimpleWntCellCycleModel::CreateCellCycleModel ( )

virtual

Overridden builder method to create new copies of this cell-cycle model.

Returns: the new cell-cycle model

Implements AbstractCellCycleModel.

Reimplemented in SingleOdeWntCellCycleModel.

Definition at line 50 of file SimpleWntCellCycleModel.cpp.

double SimpleWntCellCycleModel::GetWntLabelledThreshold ( )

Returns: mWntLabelledThreshold

Definition at line 303 of file SimpleWntCellCycleModel.cpp.

References mWntLabelledThreshold.

double SimpleWntCellCycleModel::GetWntLevel ( )

protected

Returns: the Wnt level experienced by the cell.

Definition at line 126 of file SimpleWntCellCycleModel.cpp.

References WntConcentration< DIM >::GetWntLevel(), WntConcentration< DIM >::Instance(), AbstractCellCycleModel::mDimension, AbstractCellCycleModel::mpCell, and NEVER_REACHED.

Referenced by SingleOdeWntCellCycleModel::AdjustOdeParameters(), SingleOdeWntCellCycleModel::CreateCellCycleModel(), SingleOdeWntCellCycleModel::Initialise(), and UpdateCellCyclePhase().

double SimpleWntCellCycleModel::GetWntStemThreshold ( )

Returns: mWntStemThreshold

Definition at line 279 of file SimpleWntCellCycleModel.cpp.

References mWntStemThreshold.

double SimpleWntCellCycleModel::GetWntTransitThreshold ( )

Returns: mWntTransitThreshold

Definition at line 291 of file SimpleWntCellCycleModel.cpp.

References mWntTransitThreshold.

WntConcentrationType SimpleWntCellCycleModel::GetWntType ( )

protected

Returns: the type of Wnt concentration (LINEAR, RADIAL, EXPONENTIAL or NONE). This affects how the cell cycle phase is updated.

Definition at line 157 of file SimpleWntCellCycleModel.cpp.

References WntConcentration< DIM >::GetType(), WntConcentration< DIM >::Instance(), AbstractCellCycleModel::mDimension, and NEVER_REACHED.

Referenced by InitialiseDaughterCell(), and UpdateCellCyclePhase().

void SimpleWntCellCycleModel::InitialiseDaughterCell ( )

virtual

Overridden InitialiseDaughterCell() method.

Reimplemented from AbstractSimpleCellCycleModel.

Definition at line 260 of file SimpleWntCellCycleModel.cpp.

References GetWntType(), AbstractSimpleCellCycleModel::InitialiseDaughterCell(), and AbstractCellCycleModel::mpCell.

void SimpleWntCellCycleModel::OutputCellCycleModelParameters ( out_stream & rParamsFile )

virtual

Outputs cell-cycle model parameters to file.

Parameters

rParamsFile the file stream to which the parameters are output

Reimplemented from AbstractSimpleCellCycleModel.

Reimplemented in SingleOdeWntCellCycleModel.

Definition at line 315 of file SimpleWntCellCycleModel.cpp.

References mUseCellProliferativeTypeDependentG1Duration, mWntLabelledThreshold, mWntStemThreshold, mWntTransitThreshold, and AbstractSimpleCellCycleModel::OutputCellCycleModelParameters().

Referenced by SingleOdeWntCellCycleModel::OutputCellCycleModelParameters().

template<class Archive >

void SimpleWntCellCycleModel::serialize	(	Archive &	archive,
		const unsigned int	version
	)

inlineprivate

Archive the cell-cycle model, never used directly - boost uses this.

Parameters

archive	the archive
version	the current version of this class

Definition at line 59 of file SimpleWntCellCycleModel.hpp.

References RandomNumberGenerator::Instance(), mUseCellProliferativeTypeDependentG1Duration, mWntLabelledThreshold, mWntStemThreshold, and mWntTransitThreshold.

void SimpleWntCellCycleModel::SetG1Duration ( )

protectedvirtual

Stochastically set the G1 duration. The G1 duration is taken from a normal distribution whose mean is the G1 duration given in AbstractCellCycleModel for the cell type and whose standard deviation is 1.

Called on cell creation at the start of a simulation, and for both parent and daughter cells at cell division.

Reimplemented from AbstractSimpleCellCycleModel.

Definition at line 88 of file SimpleWntCellCycleModel.cpp.

References AbstractCellCycleModel::GetStemCellG1Duration(), AbstractCellCycleModel::GetTransitCellG1Duration(), RandomNumberGenerator::Instance(), AbstractCellCycleModel::mG1Duration, AbstractCellCycleModel::mMinimumGapDuration, AbstractCellCycleModel::mpCell, mUseCellProliferativeTypeDependentG1Duration, NEVER_REACHED, and RandomNumberGenerator::NormalRandomDeviate().