AbstractWntOdeBasedCellCycleModel Class Reference
#include <AbstractWntOdeBasedCellCycleModel.hpp>
Public Member Functions | |
| AbstractWntOdeBasedCellCycleModel (boost::shared_ptr< AbstractCellCycleModelOdeSolver > pOdeSolver=boost::shared_ptr< AbstractCellCycleModelOdeSolver >()) | |
| ~AbstractWntOdeBasedCellCycleModel () | |
| void | ResetForDivision () |
| void | UpdateCellProliferativeType () |
| virtual void | ChangeCellProliferativeTypeDueToCurrentBetaCateninLevel ()=0 |
| double | GetAverageTransitCellCycleTime () |
| double | GetAverageStemCellCycleTime () |
| virtual bool | CanCellTerminallyDifferentiate () |
Protected Member Functions | |
| double | GetWntLevel () |
| void | UpdateCellCyclePhase () |
Private Member Functions | |
| template<class Archive> | |
| void | serialize (Archive &archive, const unsigned int version) |
Friends | |
| class | boost::serialization::access |
Detailed Description
This class contains all the things common to the Wnt cell cycle ODE based models, the resetting method and updating of cell types etc.The concrete models all need to operate with a WntConcentration singleton object.
These models have a constant length M phase, run ODEs to decide when to finish G1 phase, then add time for S and G2 phases (in some classes, random periods of time). The CellProliferativeType is updated dependent on the concentration of beta-catenin (given by one of the ODEs).
Definition at line 50 of file AbstractWntOdeBasedCellCycleModel.hpp.
Constructor & Destructor Documentation
| AbstractWntOdeBasedCellCycleModel::AbstractWntOdeBasedCellCycleModel | ( | boost::shared_ptr< AbstractCellCycleModelOdeSolver > | pOdeSolver = boost::shared_ptr<AbstractCellCycleModelOdeSolver>() |
) |
Default constructor.
- Parameters:
-
pOdeSolver An optional pointer to a cell cycle model ODE solver object (allows the use of different ODE solvers)
Definition at line 31 of file AbstractWntOdeBasedCellCycleModel.cpp.
| AbstractWntOdeBasedCellCycleModel::~AbstractWntOdeBasedCellCycleModel | ( | ) |
Destructor.
Definition at line 36 of file AbstractWntOdeBasedCellCycleModel.cpp.
Member Function Documentation
| void AbstractWntOdeBasedCellCycleModel::serialize | ( | Archive & | archive, | |
| const unsigned int | version | |||
| ) | [inline, private] |
Archive the cell cycle model, never used directly - boost uses this.
- Parameters:
-
archive the archive version the current version of this class
Reimplemented from AbstractOdeBasedCellCycleModel.
Reimplemented in AbstractVanLeeuwen2009WntSwatCellCycleModel, StochasticWntCellCycleModel, VanLeeuwen2009WntSwatCellCycleModelHypothesisOne, VanLeeuwen2009WntSwatCellCycleModelHypothesisTwo, and WntCellCycleModel.
Definition at line 63 of file AbstractWntOdeBasedCellCycleModel.hpp.
| double AbstractWntOdeBasedCellCycleModel::GetWntLevel | ( | ) | [protected] |
Get the Wnt level experienced by the cell.
Definition at line 40 of file AbstractWntOdeBasedCellCycleModel.cpp.
References WntConcentration< DIM >::GetWntLevel(), WntConcentration< DIM >::Instance(), AbstractCellCycleModel::mDimension, AbstractCellCycleModel::mpCell, and NEVER_REACHED.
Referenced by WntCellCycleModel::AdjustOdeParameters(), AbstractVanLeeuwen2009WntSwatCellCycleModel::AdjustOdeParameters(), WntCellCycleModel::CreateCellCycleModel(), VanLeeuwen2009WntSwatCellCycleModelHypothesisTwo::CreateCellCycleModel(), VanLeeuwen2009WntSwatCellCycleModelHypothesisOne::CreateCellCycleModel(), StochasticWntCellCycleModel::CreateCellCycleModel(), WntCellCycleModel::Initialise(), and AbstractVanLeeuwen2009WntSwatCellCycleModel::Initialise().
| void AbstractWntOdeBasedCellCycleModel::UpdateCellCyclePhase | ( | ) | [protected, virtual] |
Call base class UpdateCellCyclePhase, then UpdateCellProliferativeType.
Reimplemented from AbstractOdeBasedCellCycleModel.
Definition at line 88 of file AbstractWntOdeBasedCellCycleModel.cpp.
References AbstractOdeBasedCellCycleModel::GetOdeStopTime(), SimulationTime::Instance(), CellCycleModelOdeHandler::mLastTime, AbstractOdeBasedCellCycleModel::UpdateCellCyclePhase(), and UpdateCellProliferativeType().
| void AbstractWntOdeBasedCellCycleModel::ResetForDivision | ( | ) | [virtual] |
Resets the Wnt Model to the start of the cell cycle (this model does not cycle naturally) Cells are given a new birth time and cell cycle proteins are reset. Note that the Wnt pathway proteins maintain their current values.
Should only be called by the Cell::Divide() method.
Reimplemented from AbstractOdeBasedCellCycleModel.
Reimplemented in StochasticWntCellCycleModel.
Definition at line 72 of file AbstractWntOdeBasedCellCycleModel.cpp.
References AbstractOdeSystem::GetInitialConditions(), CellCycleModelOdeHandler::mpOdeSystem, AbstractOdeBasedCellCycleModel::ResetForDivision(), and AbstractParameterisedSystem< VECTOR >::rGetStateVariables().
Referenced by StochasticWntCellCycleModel::ResetForDivision().
| void AbstractWntOdeBasedCellCycleModel::UpdateCellProliferativeType | ( | ) |
Updates the current cell type to reflect whether the beta-catenin level has dropped low enough to make it stop dividing. This should only be called when the cell cycle model has been evaluated to the current time, or it may give misleading results.
Definition at line 99 of file AbstractWntOdeBasedCellCycleModel.cpp.
References ChangeCellProliferativeTypeDueToCurrentBetaCateninLevel(), AbstractCellCycleModel::mpCell, and CellCycleModelOdeHandler::mpOdeSystem.
Referenced by UpdateCellCyclePhase().
| virtual void AbstractWntOdeBasedCellCycleModel::ChangeCellProliferativeTypeDueToCurrentBetaCateninLevel | ( | ) | [pure virtual] |
This must be implemented by subclasses to change cell type to reflect current levels of beta-catenin.
Implemented in AbstractVanLeeuwen2009WntSwatCellCycleModel, and WntCellCycleModel.
Referenced by UpdateCellProliferativeType().
| double AbstractWntOdeBasedCellCycleModel::GetAverageTransitCellCycleTime | ( | ) | [virtual] |
Overridden GetAverageTransitCellCycleTime() method.
Reimplemented from AbstractCellCycleModel.
Definition at line 106 of file AbstractWntOdeBasedCellCycleModel.cpp.
| double AbstractWntOdeBasedCellCycleModel::GetAverageStemCellCycleTime | ( | ) | [virtual] |
Overridden GetAverageStemCellCycleTime() method.
Reimplemented from AbstractCellCycleModel.
Definition at line 111 of file AbstractWntOdeBasedCellCycleModel.cpp.
| bool AbstractWntOdeBasedCellCycleModel::CanCellTerminallyDifferentiate | ( | ) | [virtual] |
Overridden CanCellTerminallyDifferentiate() method.
Reimplemented from AbstractCellCycleModel.
Definition at line 116 of file AbstractWntOdeBasedCellCycleModel.cpp.
Friends And Related Function Documentation
friend class boost::serialization::access [friend] |
Needed for serialization.
Reimplemented from AbstractOdeBasedCellCycleModel.
Reimplemented in AbstractVanLeeuwen2009WntSwatCellCycleModel, StochasticWntCellCycleModel, VanLeeuwen2009WntSwatCellCycleModelHypothesisOne, VanLeeuwen2009WntSwatCellCycleModelHypothesisTwo, and WntCellCycleModel.
Definition at line 55 of file AbstractWntOdeBasedCellCycleModel.hpp.
The documentation for this class was generated from the following files:
- crypt/src/cell/cycle/AbstractWntOdeBasedCellCycleModel.hpp
- crypt/src/cell/cycle/AbstractWntOdeBasedCellCycleModel.cpp
