ContactInhibitionCellCycleModel Class Reference

#include <ContactInhibitionCellCycleModel.hpp>

Inheritance diagram for ContactInhibitionCellCycleModel:

Collaboration diagram for ContactInhibitionCellCycleModel:

Public Member Functions
	ContactInhibitionCellCycleModel ()
void	UpdateCellCyclePhase ()
AbstractCellCycleModel *	CreateCellCycleModel ()
void	SetQuiescentVolumeFraction (double quiescentVolumeFraction)
double	GetQuiescentVolumeFraction ()
void	SetEquilibriumVolume (double equilibriumVolume)
double	GetEquilibriumVolume ()
void	SetCurrentQuiescentDuration (double currentQuiescentDuration)
double	GetCurrentQuiescentDuration ()
void	SetCurrentQuiescentOnsetTime (double currentQuiescentOnsetTime)
double	GetCurrentQuiescentOnsetTime ()
virtual void	OutputCellCycleModelParameters (out_stream &rParamsFile)
Public Member Functions inherited from AbstractSimpleCellCycleModel
	AbstractSimpleCellCycleModel ()
virtual	~AbstractSimpleCellCycleModel ()
virtual void	ResetForDivision ()
void	InitialiseDaughterCell ()
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 ()
virtual bool	CanCellTerminallyDifferentiate ()
double	GetMinimumGapDuration ()
void	SetMinimumGapDuration (double minimumGapDuration)
void	OutputCellCycleModelInfo (out_stream &rParamsFile)
Public Member Functions inherited from Identifiable
virtual	~Identifiable ()
std::string	GetIdentifier () const

Protected Attributes
double	mQuiescentVolumeFraction
double	mEquilibriumVolume
double	mCurrentQuiescentOnsetTime
double	mCurrentQuiescentDuration
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

Additional Inherited Members
Protected Member Functions inherited from AbstractSimpleCellCycleModel
virtual void	SetG1Duration ()

Detailed Description

Simple stress-based cell-cycle model.

A simple stress-dependent cell-cycle model that inherits from AbstractSimpleCellCycleModel. The duration of G1 phase depends on the local stress, interpreted here as deviation from target volume (or area/length in 2D/1D).

This model allows for quiescence imposed by transient periods of high stress, followed by relaxation.

Note that in this cell cycle model, quiescence is implemented by extending the G1 phase. If a cell is compressed during G2 or S phases then it will still divide, and thus cells whose volumes are smaller than the given threshold may still divide.

Definition at line 57 of file ContactInhibitionCellCycleModel.hpp.

Constructor & Destructor Documentation

ContactInhibitionCellCycleModel::ContactInhibitionCellCycleModel

(

)

Constructor.

Definition at line 40 of file ContactInhibitionCellCycleModel.cpp.

Referenced by CreateCellCycleModel().

Member Function Documentation

AbstractCellCycleModel * ContactInhibitionCellCycleModel::CreateCellCycleModel ( )

virtual

Overridden builder method to create new instances of the cell-cycle model.

Returns

new cell-cycle model

Implements AbstractCellCycleModel.

Definition at line 118 of file ContactInhibitionCellCycleModel.cpp.

References ContactInhibitionCellCycleModel(), AbstractCellCycleModel::mBirthTime, mCurrentQuiescentDuration, mCurrentQuiescentOnsetTime, AbstractCellCycleModel::mDimension, mEquilibriumVolume, AbstractCellCycleModel::mG2Duration, AbstractCellCycleModel::mMDuration, AbstractCellCycleModel::mMinimumGapDuration, mQuiescentVolumeFraction, AbstractCellCycleModel::mSDuration, AbstractCellCycleModel::mStemCellG1Duration, AbstractCellCycleModel::mTransitCellG1Duration, AbstractCellCycleModel::SetBirthTime(), SetCurrentQuiescentDuration(), SetCurrentQuiescentOnsetTime(), AbstractCellCycleModel::SetDimension(), SetEquilibriumVolume(), AbstractCellCycleModel::SetG2Duration(), AbstractCellCycleModel::SetMDuration(), AbstractCellCycleModel::SetMinimumGapDuration(), SetQuiescentVolumeFraction(), AbstractCellCycleModel::SetSDuration(), AbstractCellCycleModel::SetStemCellG1Duration(), and AbstractCellCycleModel::SetTransitCellG1Duration().

double ContactInhibitionCellCycleModel::GetCurrentQuiescentDuration

(

)

Returns

mCurrentQuiescentDuration

Definition at line 177 of file ContactInhibitionCellCycleModel.cpp.

References mCurrentQuiescentDuration.

double ContactInhibitionCellCycleModel::GetCurrentQuiescentOnsetTime

(

)

Returns

mCurrentQuiescentOnsetTime

Definition at line 187 of file ContactInhibitionCellCycleModel.cpp.

References mCurrentQuiescentOnsetTime.

double ContactInhibitionCellCycleModel::GetEquilibriumVolume

(

)

Returns

mEquilibriumVolume

Definition at line 167 of file ContactInhibitionCellCycleModel.cpp.

References mEquilibriumVolume.

double ContactInhibitionCellCycleModel::GetQuiescentVolumeFraction

(

)

Returns

mQuiescentVolumeFraction

Definition at line 157 of file ContactInhibitionCellCycleModel.cpp.

References mQuiescentVolumeFraction.

void ContactInhibitionCellCycleModel::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.

Definition at line 192 of file ContactInhibitionCellCycleModel.cpp.

References mEquilibriumVolume, mQuiescentVolumeFraction, and AbstractSimpleCellCycleModel::OutputCellCycleModelParameters().

template<class Archive >

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

inlineprivate

Boost Serialization method for archiving/checkpointing

Parameters

archive	The boost archive.
version	The current version of this class.

Definition at line 69 of file ContactInhibitionCellCycleModel.hpp.

References mCurrentQuiescentDuration, mCurrentQuiescentOnsetTime, mEquilibriumVolume, and mQuiescentVolumeFraction.

void ContactInhibitionCellCycleModel::SetCurrentQuiescentDuration

(

double

currentQuiescentDuration

)

Set method for mCurrentQuiescentDuration.

Parameters

currentQuiescentDuration

the new value of mCurrentQuiescentDuration

Definition at line 172 of file ContactInhibitionCellCycleModel.cpp.

References mCurrentQuiescentDuration.

Referenced by CreateCellCycleModel().

void ContactInhibitionCellCycleModel::SetCurrentQuiescentOnsetTime

(

double

currentQuiescentOnsetTime

)

Set method for mCurrentQuiescentOnsetTime.

Parameters

currentQuiescentOnsetTime

the new value of mCurrentQuiescentOnsetTime

Definition at line 182 of file ContactInhibitionCellCycleModel.cpp.

References mCurrentQuiescentOnsetTime.

Referenced by CreateCellCycleModel().

void ContactInhibitionCellCycleModel::SetEquilibriumVolume

(

double

equilibriumVolume

)

Parameters

equilibriumVolume

Definition at line 162 of file ContactInhibitionCellCycleModel.cpp.

References mEquilibriumVolume.

Referenced by CreateCellCycleModel().

void ContactInhibitionCellCycleModel::SetQuiescentVolumeFraction

(

double

quiescentVolumeFraction

)

Parameters

quiescentVolumeFraction

Definition at line 152 of file ContactInhibitionCellCycleModel.cpp.

References mQuiescentVolumeFraction.

Referenced by CreateCellCycleModel().

void ContactInhibitionCellCycleModel::UpdateCellCyclePhase ( )

virtual

Overridden UpdateCellCyclePhase() method.

Reimplemented from AbstractSimpleCellCycleModel.

Definition at line 49 of file ContactInhibitionCellCycleModel.cpp.

References DOUBLE_UNSET, EXCEPTION, AbstractCellCycleModel::GetAge(), AbstractCellCycleModel::GetG2Duration(), AbstractCellCycleModel::GetMDuration(), AbstractCellCycleModel::GetSDuration(), SimulationTime::GetTime(), SimulationTime::GetTimeStep(), SimulationTime::Instance(), AbstractCellCycleModel::mCurrentCellCyclePhase, mCurrentQuiescentDuration, mCurrentQuiescentOnsetTime, mEquilibriumVolume, AbstractCellCycleModel::mG1Duration, AbstractCellCycleModel::mpCell, and mQuiescentVolumeFraction.

Member Data Documentation

double ContactInhibitionCellCycleModel::mCurrentQuiescentDuration

protected

How long the current period of quiescence has lasted. Has units of hours.

Definition at line 99 of file ContactInhibitionCellCycleModel.hpp.

Referenced by CreateCellCycleModel(), GetCurrentQuiescentDuration(), serialize(), SetCurrentQuiescentDuration(), and UpdateCellCyclePhase().

double ContactInhibitionCellCycleModel::mCurrentQuiescentOnsetTime

protected

The time when the current period of quiescence began.

Definition at line 93 of file ContactInhibitionCellCycleModel.hpp.

Referenced by CreateCellCycleModel(), GetCurrentQuiescentOnsetTime(), serialize(), SetCurrentQuiescentOnsetTime(), and UpdateCellCyclePhase().

double ContactInhibitionCellCycleModel::mEquilibriumVolume

protected

The cell equilibrium volume while in G1 phase.

Definition at line 88 of file ContactInhibitionCellCycleModel.hpp.

Referenced by CreateCellCycleModel(), GetEquilibriumVolume(), OutputCellCycleModelParameters(), serialize(), SetEquilibriumVolume(), and UpdateCellCyclePhase().

double ContactInhibitionCellCycleModel::mQuiescentVolumeFraction

protected

The fraction of the cells' equilibrium volume in G1 phase below which these cells are quiescent.

Definition at line 83 of file ContactInhibitionCellCycleModel.hpp.

Referenced by CreateCellCycleModel(), GetQuiescentVolumeFraction(), OutputCellCycleModelParameters(), serialize(), SetQuiescentVolumeFraction(), and UpdateCellCyclePhase().

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The documentation for this class was generated from the following files:

• cell_based/src/cell/cycle/ContactInhibitionCellCycleModel.hpp
• cell_based/src/cell/cycle/ContactInhibitionCellCycleModel.cpp