NMDA subunit effects on Calcium and STDP (Evans et al. 2012)

 Download zip file 
Help downloading and running models
Effect of NMDA subunit on spike timing dependent plasticity.
1 . Evans RC, Morera-Herreras T, Cui Y, Du K, Sheehan T, Kotaleski JH, Venance L, Blackwell KT (2012) The effects of NMDA subunit composition on calcium influx and spike timing-dependent plasticity in striatal medium spiny neurons. PLoS Comput Biol 8:e1002493 [PubMed]
Citations  Citation Browser
Model Information (Click on a link to find other models with that property)
Model Type: Neuron or other electrically excitable cell;
Brain Region(s)/Organism:
Cell Type(s): Neostriatum medium spiny direct pathway GABA cell;
Channel(s): I Na,t; I L high threshold; I T low threshold; I A; I h; I K,Ca; I Calcium; I A, slow;
Gap Junctions:
Receptor(s): GabaA; Glutamate;
Simulation Environment: GENESIS;
Model Concept(s): STDP; Calcium dynamics;
Implementer(s): Blackwell, Avrama [avrama at gmu.edu]; Evans, Rebekah [Rebekah.Evans at nih.gov];
Search NeuronDB for information about:  Neostriatum medium spiny direct pathway GABA cell; GabaA; Glutamate; I Na,t; I L high threshold; I T low threshold; I A; I h; I K,Ca; I Calcium; I A, slow;
//  kAs_chanRE.g

/***************************		MS Model, Version 7.6	*********************
**************************** 	      kAs_chanRE.g  	*********************
	Avrama Blackwell 	kblackw1@gmu.edu
	Rebekah Evans 		rcolema2@gmu.edu	
	Tom Sheehan 		tsheeha2@gmu.edu	

function make_KAs_channel
   //include tabchanforms
  //initial parameters for making tab channel
	float Erev = -0.09
	int m_power = 2
        int h_power = 1
//Activation constants for alphas and betas (obtained by matching Tkatch 2000)
	float mA_rate = 0.25 //units msec
	float mA_vhalf = 50
	float mA_slope = -20
	float mB_rate = 0.05 //units msec
	float mB_vhalf = -90
	float mB_slope = 35
//Inactivation constants for alphas and betas
	float hA_rate = 2.5 //units sec
	float hA_vhalf = -95
	float hA_slope = 16
	float hB_rate = 2 //units sec
	float hB_vhalf = 50
	float hB_slope = -70
	//table filling parameters	
    float xmin  = -0.1  /* minimum voltage we will see in the simulation */ 
    float xmax  = 0.05  /* maximum voltage we will see in the simulation */ 
    int  xdivsFiner = 3000 /* the number of divisions between -0.1 and 0.05 */
    int c = 0
    float increment = 1000*{{xmax}-{xmin}}/{xdivsFiner}
//    echo "kAs: inc="{increment}"mV"
    float x = -100
	float m_alpha, m_beta, h_alpha, h_beta
    /* make the table for the activation with a range of -100mV - +50mV
     * with an entry for every 10mV
    str path = "KAs_channel" 
    create tabchannel {path} 
    call {path} TABCREATE X {xdivsFiner} {xmin} {xmax} 
    call {path} TABCREATE Y {xdivsFiner} {xmin} {xmax} 
    /*fills the tabchannel with values for minf, mtau, hinf and htau,
     *from the files.

echo "make kA, qfactor=" {qfactorkAs}	
    for (c = 0; c < {xdivsFiner} + 1; c = c + 1)
		float m_alpha = {sig_form {mA_rate} {mA_vhalf} {mA_slope} {x}}
		float m_beta = {sig_form {mB_rate} {mB_vhalf} {mB_slope} {x}}
		float h_alpha = {sig_form {hA_rate} {hA_vhalf} {hA_slope} {x}}
		float h_beta = {sig_form {hB_rate} {hB_vhalf} {hB_slope} {x}}
		float xa = {1/{{m_alpha}+{m_beta}}}
		float xb = {{m_alpha}/{{m_alpha}+{m_beta}}}
		float ya = {1/{{h_alpha}+{h_beta}}}
		float yb = {{{{h_alpha}/{{h_alpha}+{h_beta}}}*0.8}+0.2}
		//the *0.8+0.2 in yb is to make the channel partially inactivate.  
		// Tables are filled with inf and taus in order to make this channel partially inactivate.
		setfield {path} X_A->table[{c}] {(xa*1e-3)/qfactorkAs}
		setfield {path} X_B->table[{c}] {xb}
		setfield {path} Y_A->table[{c}] {ya/qfactorkAs}
        setfield {path} Y_B->table[{c}] {yb}
		x = x + increment
    /* Defines the powers of m and h in the Hodgkin-Huxley equation*/
    setfield {path} Ek {Erev} Xpower {m_power} Ypower {h_power} 
    tweaktau {path} X 
    tweaktau {path} Y