//genesis
/***************************MS Model, Version 6 *********************
**************************** naF_chan.g *********************
Rebekah Evans rcolema2@gmu.edu
Tom Sheehan tsheeha2@gmu.edu thsheeha@vt.edu 703-538-8361
******************************************************************************
******************************************************************************/
/* Na Fast channel
* This is a tab channel created from NaF channel data in Martina and Jonas 1997.
* They are using hippocmpal pyramidal cells and are recording at 22-24 degrees C.
* there is data from hamster striatal neurons that closely matches, but is slightly less complete (Sieb et al., 2002) 20-21 degrees.
* Our data matching process showed that the original model from Johanes Hjorth via Kai Du and Tom Sheehan matched closely with the
* activation and inactivation inf curves, but did not match the tau curves very well. This new tab channel uses Alphas and Betas obtained by
* matching both the inf (cubed) and tau curves.
* Note that to distinguish these updated channels from the old, the file is now called NaF_chan.g (instead of NaF_channel.g) and the
* function is called make_NaF_chan.
* *************** Rebekah Evans 01/23/10 rcolema2@gmu.edu ********************************/
/**********************************************************************************
*******************************Naf channel of MSN**********************************
**ref: Nobukuni Ogata, et.al. 1990
**implemented by Kai Du, kai.du@ki.se
***********************************************************************************/
function make_NaF_channel_D1
float Erev = 0.05 // V
str path = "NaF_channel_D1"
float xmin = -0.10 /* minimum voltage we will see in the simulation */ // V
float xmax = 0.05 /* maximum voltage we will see in the simulation */ // V
int xdivsFiner = 3000
int c = 0
/****** Begin vars used to enable genesis calculations ********/
float increment = (xmax - xmin)*1e3/xdivsFiner // mV
echo "naF: increment" {increment} "mV"
float x = -100.00 // mV
float minf = 0
float hinf = 0
float mvhalf = -25.0 // mV, Nobukuni Ogata, et.al. 1990
float mshift = 0.0 // mV
float mslope = 9.2 // mV, Nobukuni Ogata, et.al. 1990
float hvhalf = -62.0 // mV, Nobukuni Ogata, et.al. 1990
float hslope = 6.0 // 6mV, Nobukuni Ogata, et.al. 1990
float hshift = 0.0 // mV
float taum = 0 // ms
float tauh = 0 // ms
/****** End vars used to enable genesis calculations **********/
create tabchannel {path}
call {path} TABCREATE X {xdivsFiner} {xmin} {xmax} // activation gate
call {path} TABCREATE Y {xdivsFiner} {xmin} {xmax} // inactivation gate
// set tau_m table
float qfactor = 1.2 // Ogata's experiment was done in room temperature
create table naf_taum // ms
call naf_taum TABCREATE 15 {xmin} {xmax}
//the table corresponds to -100 mV to 50 mV
setfield naf_taum table->table[0] 0.3162 \
table->table[1] 0.3162 \
table->table[2] 0.3162 \
table->table[3] 0.4074 \
table->table[4] 0.6166 \
table->table[5] 0.3548 \
table->table[6] 0.2399 \
table->table[7] 0.1585 \
table->table[8] 0.1047 \
table->table[9] 0.0871 \
table->table[10] 0.0851 \
table->table[11] 0.0813 \
table->table[12] 0.0832 \
table->table[13] 0.0832 \
table->table[14] 0.0832 \
table->table[15] 0.0832
create table naf_tauh // ms
call naf_tauh TABCREATE 15 {xmin} {xmax}
//the table corresponds to -100 mV to 50 mV
setfield naf_tauh table->table[0] 1.5 \
table->table[1] 1.5 \
table->table[2] 1.5 \
table->table[3] 1.5 \
table->table[4] 1.5 \
table->table[5] 1.5 \
table->table[6] 1.5136 \
table->table[7] 0.6761 \
table->table[8] 0.5129 \
table->table[9] 0.4365 \
table->table[10] 0.3715 \
table->table[11] 0.3388 \
table->table[12] 0.2951 \
table->table[13] 0.2884 \
table->table[14] 0.2754 \
table->table[15] 0.2754
call naf_taum TABFILL {xdivsFiner} 2
call naf_tauh TABFILL {xdivsFiner} 2
for(c = 0; c < {xdivsFiner} + 1; c = c + 1)
minf = 1/(1 + {exp {-(x - mvhalf + mshift)/mslope}})
hinf = 1/(1 + {exp {(x - hvhalf + hshift)/hslope}})
taum = {getfield naf_taum table->table[{c}]}/qfactor
tauh = {getfield naf_tauh table->table[{c}]}/qfactor
setfield {path} X_A->table[{c}] {taum*1e-3}
setfield {path} X_B->table[{c}] {minf}
setfield {path} Y_A->table[{c}] {tauh*1e-3}
setfield {path} Y_B->table[{c}] {hinf}
x = x + increment
end
/* Defines the powers of m Hodgkin-Huxley equation*/
setfield {path} Ek {Erev} Xpower 3 Ypower 1
/* fill the tables with the values of tau and minf/hinf
* calculated from tau and minf/hinf
*/
tweaktau {path} X
tweaktau {path} Y
end
function make_NaF_channel_D2
float Erev = 0.05 // V
str path = "NaF_channel_D2"
float xmin = -0.10 /* minimum voltage we will see in the simulation */ // V
float xmax = 0.05 /* maximum voltage we will see in the simulation */ // V
int xdivsFiner = 3000
int c = 0
/****** Begin vars used to enable genesis calculations ********/
float increment = (xmax - xmin)*1e3/xdivsFiner // mV
echo "naF: increment" {increment} "mV"
float x = -100.00 // mV
float minf = 0
float hinf = 0
float mvhalf = -25.0 // mV, Nobukuni Ogata, et.al. 1990
float mshift = 3.0 // 0 mV
float mslope = 9.2 // mV, Nobukuni Ogata, et.al. 1990
float hvhalf = -62.0 // mV, Nobukuni Ogata, et.al. 1990
float hslope = 6.0 // 6mV, Nobukuni Ogata, et.al. 1990
float hshift = 0.0 // mV
float taum = 0 // ms
float tauh = 0 // ms
/****** End vars used to enable genesis calculations **********/
create tabchannel {path}
call {path} TABCREATE X {xdivsFiner} {xmin} {xmax} // activation gate
call {path} TABCREATE Y {xdivsFiner} {xmin} {xmax} // inactivation gate
// set tau_m table
float qfactor = 1.2 // Ogata's experiment was done in room temperature
create table naf_taum // ms
call naf_taum TABCREATE 15 {xmin} {xmax}
//the table corresponds to -100 mV to 50 mV
setfield naf_taum table->table[0] 0.3162 \
table->table[1] 0.3162 \
table->table[2] 0.3162 \
table->table[3] 0.4074 \
table->table[4] 0.6166 \
table->table[5] 0.3548 \
table->table[6] 0.2399 \
table->table[7] 0.1585 \
table->table[8] 0.1047 \
table->table[9] 0.0871 \
table->table[10] 0.0851 \
table->table[11] 0.0813 \
table->table[12] 0.0832 \
table->table[13] 0.0832 \
table->table[14] 0.0832 \
table->table[15] 0.0832
create table naf_tauh // ms
call naf_tauh TABCREATE 15 {xmin} {xmax}
//the table corresponds to -100 mV to 50 mV
setfield naf_tauh table->table[0] 1.5 \
table->table[1] 1.5 \
table->table[2] 1.5 \
table->table[3] 1.5 \
table->table[4] 1.5 \
table->table[5] 1.5 \
table->table[6] 1.5136 \
table->table[7] 0.6761 \
table->table[8] 0.5129 \
table->table[9] 0.4365 \
table->table[10] 0.3715 \
table->table[11] 0.3388 \
table->table[12] 0.2951 \
table->table[13] 0.2884 \
table->table[14] 0.2754 \
table->table[15] 0.2754
call naf_taum TABFILL {xdivsFiner} 2
call naf_tauh TABFILL {xdivsFiner} 2
for(c = 0; c < {xdivsFiner} + 1; c = c + 1)
minf = 1/(1 + {exp {-(x - mvhalf + mshift)/mslope}})
hinf = 1/(1 + {exp {(x - hvhalf + hshift)/hslope}})
taum = {getfield naf_taum table->table[{c}]}/qfactor
tauh = {getfield naf_tauh table->table[{c}]}/qfactor
setfield {path} X_A->table[{c}] {taum*1e-3}
setfield {path} X_B->table[{c}] {minf}
setfield {path} Y_A->table[{c}] {tauh*1e-3}
setfield {path} Y_B->table[{c}] {hinf}
x = x + increment
end
/* Defines the powers of m Hodgkin-Huxley equation*/
setfield {path} Ek {Erev} Xpower 3 Ypower 1
/* fill the tables with the values of tau and minf/hinf
* calculated from tau and minf/hinf
*/
tweaktau {path} X
tweaktau {path} Y
end