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/*=========================================================================
Program: Insight Segmentation & Registration Toolkit
Module: itkBioGeneNetwork.h
Language: C++
Date: $Date$
Version: $Revision$
Copyright (c) Insight Software Consortium. All rights reserved.
See ITKCopyright.txt or http://www.itk.org/HTML/Copyright.htm for details.
This software is distributed WITHOUT ANY WARRANTY; without even
the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
PURPOSE. See the above copyright notices for more information.
=========================================================================*/
#ifndef __itkBioGeneNetwork_h
#define __itkBioGeneNetwork_h
#ifdef _MSC_VER
#pragma warning ( disable : 4786 )
#endif
#include <vector>
namespace itk {
namespace bio {
/** \class GeneNetwork
* \brief This class implement the abstraction of a biological gene network.
*
* This class is implemented to iteratively compute the state of the gene network
* following update rules (typical Partial Differential Equations).
*
*/
class GeneNetwork
{
public:
typedef std::vector< float > ProteomeType;
typedef std::vector< float > DomainsType;
public:
GeneNetwork();
virtual ~GeneNetwork();
void Copy( const GeneNetwork & genome );
private:
// This array contains the concentrations each protein
// in the cell at a certain time.
ProteomeType m_ProteinConcentration;
// This array contains the concentrations domain affinities
// in the cell at a certain time. Since each protein may
// have multiple domains and each domain have affinities
// for standard domains in the regulatory section of genes,
// this array is indexed by the domains in the regulatory
// section. The final value on each entry indicates the
// probability of a domain to be bound during a certain time
// interval.
DomainsType m_DomainConcentration;
};
} // end namespace bio
} // end namespace itk
#endif
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