itk::bio::Gene Class Reference

This class implement the abstraction of a biological gene. More...

#include <itkBioGene.h>

List of all members.

Public Types
typedef std::string	NameType
typedef std::string	DomainType
typedef double	AffinityType
typedef std::map< DomainType, AffinityType >	ProteinDomainsType
typedef std::vector< ControlDomainType >	GeneControlDomainsType
Public Member Functions
	Gene ()
virtual	~Gene ()
void	Copy (const Gene &genome)
void	AddProteinDomain (const DomainType &domain, AffinityType affinity)
void	AddGeneControlDomain (const DomainType &domain, bool type)
void	SetName (const NameType &name)
void	SetName (const char *name)
const char *	GetName () const

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Detailed Description

This class implement the abstraction of a biological gene.

The gene has a name and a specification of promoters and represor binding sites. Promoter and represors encode a boolean expression that allows to control the expression of the gene. These boolean expression will result in a polynome in a finite different equation determining the rate at which protein is syntethizied by this gene.

Definition at line 41 of file itkBioGene.h.

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Member Typedef Documentation

typedef double itk::bio::Gene::AffinityType

Definition at line 46 of file itkBioGene.h.

typedef std::string itk::bio::Gene::DomainType

Definition at line 45 of file itkBioGene.h.

typedef std::vector< ControlDomainType > itk::bio::Gene::GeneControlDomainsType

Definition at line 50 of file itkBioGene.h.

typedef std::string itk::bio::Gene::NameType

Definition at line 44 of file itkBioGene.h.

typedef std::map< DomainType, AffinityType > itk::bio::Gene::ProteinDomainsType

Definition at line 47 of file itkBioGene.h.

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Constructor & Destructor Documentation

itk::bio::Gene::Gene (   )

virtual itk::bio::Gene::~Gene (   )  [virtual]

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Member Function Documentation

void itk::bio::Gene::AddGeneControlDomain (  const DomainType &  domain, bool  type )

Add a control domain to the gene. A control domain is an enhancer or silencer. A gene can have any number of them. The type will indicate if they are enhancers or silencers.

void itk::bio::Gene::AddProteinDomain (  const DomainType &  domain, AffinityType  affinity )

Add a protein domain along with an affinity. The name of the domain here actually refers to the one for which this protein will have binding affinity. For example, adding "SH2" with affinity 0.05 will means that this gene will synthetize a proteing with a domain that has 0.05 affinity for a standard SH2 domain.

void itk::bio::Gene::Copy (  const Gene &  genome  )

const char* itk::bio::Gene::GetName (   )  const

Set/Get the name of the gene. This uses a std::string type.

void itk::bio::Gene::SetName (  const char *  name  )

Set/Get the name of the gene. This uses a std::string type.

void itk::bio::Gene::SetName (  const NameType &  name  )

Set/Get the name of the gene. This uses a std::string type.

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

• itkBioGene.h

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