Transforming XML file: NeuroMLFiles/Examples/ChannelML/NaF_Chan.xml
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Converting the file: NaF_Chan.xml
General notes 
Notes present in ChannelML file 
 A channel from Maex, R and De Schutter, E. Synchronization of Golgi and Granule Cell Firing in a
Detailed Network Model of the Cerebellar Granule Cell Layer 
Unit system of ChannelML file 
This can be either SI Units or Physiological Units (milliseconds, centimeters, millivolts, etc.) 
 SI Units 
Channel: Gran_NaF_98
Name  Gran_NaF_98 
Status 
Status of element in file 
 Stable
Comment: Verified equivalence of NEURON and GENESIS mapping to orig GENESIS impl from www.tnb.ua.ac.be Comment: Updated to post v1.7.3 new ChannelML format Issue: Quite a small dt (~0.001 ms) is needed to give matching NEURON/GENESIS results for a compartment with just
this channel (and a leak current) Contributor: Padraig Gleeson 
Description 
As described in the ChannelML file 
 Fast inactivating Na+ channel 
Authors 
Authors of original model: 
Maex, R. 
De Schutter, E. 
Translators of the model to NeuroML: 
Padraig Gleeson
(UCL)
p.gleeson  at  ucl.ac.uk 

Referenced publication  Maex, R and De Schutter, E.
Synchronization of Golgi and Granule Cell Firing in a Detailed Network Model of the
cerebellar Granule Cell Layer. J Neurophysiol, Nov 1998; 80: 2521  2537
Pubmed

Reference in NeuronDB 
Na channels

Current voltage relationship  ohmic 
Ion involved in channel 
The ion which is actually flowing through the channel and its default reversal potential.
Note that the reversal potential will normally depend on the internal and external concentrations of the ion at the segment on which the channel is placed. 
 na (default E_{na} = 0.055 V)

Default maximum conductance density 
Note that the conductance density of the channel will be set when it is placed on the cell. 
 G_{max} = 546.301 S m^{2} 
Conductance expression 
Expression giving the actual conductance as a function of time and voltage 
 G_{na}(v,t) = G_{max}
* m(v,t)
^{3} * h(v,t)

Current due to channel 
Ionic current through the channel 
 I_{na}(v,t) =
G_{na}(v,t) * (v  E_{na}) 
Q10 scaling 
Q10 scaling affects the tau in the rate equations. It allows rate equations experimentally calculated at one temperature
to be used at a different temperature. 

Q10 adjustment applied to gates:  all 
Q10_factor:  3 
Experimental temperature (at which rate constants below were determined):  17.350264793 ^{o}C 
Expression for tau at T using tauExp as calculated from rate equations: 
tau(T) = tauExp / 3^((T  17.350264793)/10) 

Voltage offset 
This introduces a shift in the voltage dependence of the rate equations.
If, for example, the equation parameters being used in a model were from a different species,
this offset can be introduced to alter the firing threshold to something closer to the species
being modelled. See mappings for details. 
 0.010 V 
Gate: m
The equations below determine the dynamics of gating state m

Instances of gating elements  3 
Closed state  m0 
Open state  m 

Transition: alpha from m0 to m 
Expression  alpha(v) = A*exp((vV_{1/2})/B) (exponential) 
Parameter values 
A = 1500 s^{1}
B = 0.012345679 V
V_{1/2} = 0.039 V

Substituted 
alpha(v) =
1500 * e ^{
(v  (0.039))/0.012345679} 

Transition: beta from m to m0 
Expression  beta(v) = A*exp((vV_{1/2})/B) (exponential) 
Parameter values 
A = 1500 s^{1}
B = 0.0151515 V
V_{1/2} = 0.039 V

Substituted 
beta(v) =
1500 * e ^{
(v  (0.039))/0.0151515} 

Transition time course: tau from m0 to m 
Generic expression  tau(v) = 1/(alpha + beta) < 0.00005 ? 0.00005 : 1/(alpha + beta) 
Gate: h
The equations below determine the dynamics of gating state h

Instances of gating elements  1 
Closed state  h0 
Open state  h 

Transition: alpha from h0 to h 
Expression  alpha(v) = A*exp((vV_{1/2})/B) (exponential) 
Parameter values 
A = 120 s^{1}
B = 0.01123596 V
V_{1/2} = 0.05 V

Substituted 
alpha(v) =
120 * e ^{
(v  (0.05))/0.01123596} 

Transition: beta from h to h0 
Expression  beta(v) = A*exp((vV_{1/2})/B) (exponential) 
Parameter values 
A = 120 s^{1}
B = 0.01123596 V
V_{1/2} = 0.05 V

Substituted 
beta(v) =
120 * e ^{
(v  (0.05))/0.01123596} 

Transition time course: tau from h0 to h 
Generic expression  tau(v) = 1/(alpha + beta) < 0.000225 ? 0.000225 : 1/(alpha + beta) 
Implementation Preferences
Information is provided to help produce the best implementation of the channel
mechanism. Due to some parameters in the channel mechanism the default values used in the
simulator mappings may not be sufficient, e.g. if the rate equations change rapidly,
but the default table size isn't large enough.

Settings for rate equation tables 
Recommended settings if a table of values is used to speed up calculation
of the rate equation values. 
 Number of table divisions: 4000
Maximum voltage for tables: 0.1 V
Minimum voltage for tables: 0.1 V


Time to transform file: 0.123 secs