Mirams2010WntOdeSystem Class Reference

#include <Mirams2010WntOdeSystem.hpp>

Collaboration diagram for Mirams2010WntOdeSystem:

Public Member Functions
	Mirams2010WntOdeSystem (double wntLevel=0.0, boost::shared_ptr< AbstractCellMutationState > pMutationState=boost::shared_ptr< AbstractCellMutationState >(), std::vector< double > stateVariables=std::vector< double >())
	~Mirams2010WntOdeSystem ()
void	Init ()
void	SetMutationState (boost::shared_ptr< AbstractCellMutationState > pMutationState)
const boost::shared_ptr < AbstractCellMutationState >	GetMutationState () const
void	EvaluateYDerivatives (double time, const std::vector< double > &rY, std::vector< double > &rDY)
double	GetWntLevel () const
Private Member Functions
template<class Archive >
void	serialize (Archive &archive, const unsigned int version)
Private Attributes
double	mA
double	mB
double	mC
double	mD
double	mE
double	mF
boost::shared_ptr < AbstractCellMutationState >	mpMutationState
double	mWntLevel
Friends
class	boost::serialization::access

Detailed Description

Represents the Mirams et al. system of ODEs, based on Swat et al. (2004) [doi:10.1093/bioinformatics/bth110] and a simple Wnt model (unpublished)

The variables are

6. b1 = Beta-Catenin (from 1st allele) 7. b2 = Beta-Catenin (from 1st allele) 8. WntLevel

Definition at line 60 of file Mirams2010WntOdeSystem.hpp.

Constructor & Destructor Documentation

Mirams2010WntOdeSystem::Mirams2010WntOdeSystem	(	double	wntLevel = `0.0`,
		boost::shared_ptr< AbstractCellMutationState >	pMutationState = `boost::shared_ptr<AbstractCellMutationState>()`,
		std::vector< double >	stateVariables = `std::vector<double>()`
	)

Constructor.

Parameters:

	wntLevel	is a non-dimensional Wnt value between 0 and 1. This sets up the Wnt pathway in its steady state.
	pMutationState	optional mutation state (affects the ODE system)
	stateVariables	optional initial conditions for state variables (only used in archiving)

State variables.

0. b1 = Beta-Catenin (1st allele's copy) 1. b2 = Beta-Catenin (2nd allele's copy) 2. wntLevel

Definition at line 31 of file Mirams2010WntOdeSystem.cpp.

References Init(), mA, mB, mC, mD, mF, mpMutationState, AbstractUntemplatedParameterisedSystem::mpSystemInfo, AbstractParameterisedSystem< std::vector< double > >::SetDefaultInitialCondition(), and AbstractParameterisedSystem< std::vector< double > >::SetStateVariables().

Mirams2010WntOdeSystem::~Mirams2010WntOdeSystem ( )

Destructor.

Definition at line 82 of file Mirams2010WntOdeSystem.cpp.

Member Function Documentation

void Mirams2010WntOdeSystem::EvaluateYDerivatives	(	double	time,
		const std::vector< double > &	rY,
		std::vector< double > &	rDY
	)			`[virtual]`

Compute the RHS of the WntCellCycle system of ODEs.

Returns a vector representing the RHS of the ODEs at each time step, y' = [y1' ... yn']. An ODE solver will call this function repeatedly to solve for y = [y1 ... yn].

Parameters:

	time	used to evaluate the RHS.
	rY	value of the solution vector used to evaluate the RHS.
	rDY	filled in with the resulting derivatives (using Alarcons et al. (2004) system of equations).

Implements AbstractOdeSystem.

Definition at line 98 of file Mirams2010WntOdeSystem.cpp.

References mA, mB, mC, mD, mE, mF, and mpMutationState.

const boost::shared_ptr< AbstractCellMutationState > Mirams2010WntOdeSystem::GetMutationState ( ) const

Called by the archive function on the Wnt cell-cycle model.