SingleOdeWntCellCycleModel Class Reference

#include <SingleOdeWntCellCycleModel.hpp>

Collaboration diagram for SingleOdeWntCellCycleModel:

Public Member Functions
	SingleOdeWntCellCycleModel ()
	SingleOdeWntCellCycleModel (std::vector< double > &rProteinConcs, boost::shared_ptr< AbstractCellMutationState > pMutationState, unsigned &rDimension, bool useTypeDependentG1=false)
	~SingleOdeWntCellCycleModel ()
	SingleOdeWntCellCycleModel (const SingleOdeWntCellCycleModel &rOtherModel)
void	Initialise ()
void	UpdateCellCyclePhase ()
AbstractCellCycleModel *	CreateCellCycleModel ()
double	GetBetaCateninConcentration ()
void	SetBetaCateninDivisionThreshold (double betaCateninDivisionThreshold)
double	GetBetaCateninDivisionThreshold ()
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 ()
void	UpdateBetaCateninLevel ()
Private Attributes
Mirams2010WntOdeSystem *	mpOdeSystem
double	mBetaCateninDivisionThreshold
double	mLastTime
Static Private Attributes
static RungeKutta4IvpOdeSolver	msSolver
Friends
class	boost::serialization::access

Detailed Description

Wnt-dependent cell cycle model. Needs to operate with a WntConcentration singleton object.

This model has a constant length M phase, runs ODEs to decide when to finish G1 phase then adds time for S and G2 phases. The CellProliferativeType is updated dependent on the concentration of beta-catenin (given by one of the ODEs).

Definition at line 52 of file SingleOdeWntCellCycleModel.hpp.

Constructor & Destructor Documentation

SingleOdeWntCellCycleModel::SingleOdeWntCellCycleModel ( ) [inline]

Default constructor.

Definition at line 151 of file SingleOdeWntCellCycleModel.hpp.

References msSolver.

Referenced by CreateCellCycleModel().

SingleOdeWntCellCycleModel::SingleOdeWntCellCycleModel	(	std::vector< double > &	rProteinConcs,
		boost::shared_ptr< AbstractCellMutationState >	pMutationState,
		unsigned &	rDimension,
		bool	useTypeDependentG1 = `false`
	)

A 'private' constructor for archiving.

Parameters:

	rProteinConcs	a std::vector of doubles of the protein concentrations (see VanLeeuwen2009WntSwatCellCycleOdeSystem)
	pMutationState	the mutation state of the cell (used by ODEs)
	rDimension	the spatial dimension
	useTypeDependentG1	whether to make the duration of G1 phase dependent on the cell's proliferative type (defaults to false)

Definition at line 68 of file SingleOdeWntCellCycleModel.cpp.

References mpOdeSystem, msSolver, AbstractOdeSystem::rGetStateVariables(), AbstractCellCycleModel::SetDimension(), and SimpleWntCellCycleModel::SetUseCellProliferativeTypeDependentG1Duration().

SingleOdeWntCellCycleModel::~SingleOdeWntCellCycleModel ( )

Destructor.

Definition at line 37 of file SingleOdeWntCellCycleModel.cpp.

References mpOdeSystem.

SingleOdeWntCellCycleModel::SingleOdeWntCellCycleModel ( const SingleOdeWntCellCycleModel & rOtherModel )

Copy constructor.

This is important to make a copy of the ODE system instead of giving the copied cell cycle model a pointer to the same ODE.

Parameters:

rOtherModel

the one to copy

Definition at line 47 of file SingleOdeWntCellCycleModel.cpp.

References mBetaCateninDivisionThreshold, mLastTime, and mpOdeSystem.

Member Function Documentation

void SingleOdeWntCellCycleModel::ChangeCellProliferativeTypeDueToCurrentBetaCateninLevel ( ) [private]

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.

Definition at line 132 of file SingleOdeWntCellCycleModel.cpp.

References GetBetaCateninConcentration(), GetBetaCateninDivisionThreshold(), AbstractCellCycleModel::mpCell, mpOdeSystem, and TissueCell::SetCellProliferativeType().

Referenced by Initialise(), and UpdateCellCyclePhase().

AbstractCellCycleModel * SingleOdeWntCellCycleModel::CreateCellCycleModel ( ) [virtual]

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

Reimplemented from SimpleWntCellCycleModel.

Definition at line 42 of file SingleOdeWntCellCycleModel.cpp.

References SingleOdeWntCellCycleModel().

double SingleOdeWntCellCycleModel::GetBetaCateninConcentration ( )

Return the total beta-catenin concentration

Definition at line 146 of file SingleOdeWntCellCycleModel.cpp.

References mpOdeSystem, and AbstractOdeSystem::rGetStateVariables().

Referenced by ChangeCellProliferativeTypeDueToCurrentBetaCateninLevel().

double SingleOdeWntCellCycleModel::GetBetaCateninDivisionThreshold ( )

Get mBetaCateninDivisionThreshold.

Definition at line 156 of file SingleOdeWntCellCycleModel.cpp.

References mBetaCateninDivisionThreshold.

Referenced by ChangeCellProliferativeTypeDueToCurrentBetaCateninLevel().

void SingleOdeWntCellCycleModel::Initialise ( void ) [virtual]

Initialise the cell cycle model at the start of a simulation.

This overridden method sets up a new WntCellCycleOdeSystem, sets the cell type according to the current beta catenin level and sets a random G2 duration.

Reimplemented from AbstractSimpleCellCycleModel.

Definition at line 85 of file SingleOdeWntCellCycleModel.cpp.

References ChangeCellProliferativeTypeDueToCurrentBetaCateninLevel(), AbstractOdeSystem::GetInitialConditions(), TissueCell::GetMutationState(), SimpleWntCellCycleModel::GetWntLevel(), mBetaCateninDivisionThreshold, AbstractCellCycleModel::mBirthTime, mLastTime, AbstractCellCycleModel::mpCell, mpOdeSystem, and AbstractOdeSystem::SetStateVariables().

template<class Archive >

void SingleOdeWntCellCycleModel::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 88 of file SingleOdeWntCellCycleModel.hpp.

References mBetaCateninDivisionThreshold, mLastTime, mpOdeSystem, and AbstractOdeSystem::rGetStateVariables().

template<class Archive >

void SingleOdeWntCellCycleModel::save	(	Archive &	archive,
		const unsigned int	version
	)			const `[inline, private]`

Save the cell cycle model and ODE system to archive.

Parameters:

	archive	the archive
	version	the archive version

Reference can be read or written into once mpOdeSystem has been set up mpOdeSystem isn't set up by the first constructor, but is by the second which is now utilised by the load_construct at the bottom of this file.

Note mpOdeSystem itself is not archived just the current values of the state variables...

Definition at line 63 of file SingleOdeWntCellCycleModel.hpp.

References mBetaCateninDivisionThreshold, mLastTime, mpOdeSystem, and AbstractOdeSystem::rGetStateVariables().

void SingleOdeWntCellCycleModel::SetBetaCateninDivisionThreshold ( double betaCateninDivisionThreshold )

Set mBetaCateninDivisionThreshold.

Parameters:

betaCateninDivisionThreshold

to be set

Definition at line 151 of file SingleOdeWntCellCycleModel.cpp.

References mBetaCateninDivisionThreshold.

void SingleOdeWntCellCycleModel::UpdateBetaCateninLevel ( ) [private]

This method runs the ODEs and updates the beta-catenin level.