Transforming XML file: NeuroMLFiles/Examples/ChannelML/NaF_Chan.xml using XSL file: NeuroMLFiles/Schemata/v1.8.1/Level3/NeuroML_Level3_v1.8.1_HTML.xsl

View original file before transform

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

NameGran_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 publicationMaex, 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 relationshipohmic
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 Ena = 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.
Gmax = 546.301 S m-2
Conductance expression
Expression giving the actual conductance as a function of time and voltage
Gna(v,t) = Gmax * m(v,t) 3 * h(v,t)
Current due to channel
Ionic current through the channel
Ina(v,t) = Gna(v,t) * (v - Ena)
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 oC
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 elements3
Closed statem0
Open statem
 
    Transition: alpha from m0 to m
Expressionalpha(v) = A*exp((v-V1/2)/B)    (exponential)
Parameter values A = 1500 s-1   B = 0.012345679 V   V1/2 = -0.039 V
Substituted alpha(v) = 1500 * e (v - (-0.039))/0.012345679
 
    Transition: beta from m to m0
Expressionbeta(v) = A*exp((v-V1/2)/B)    (exponential)
Parameter values A = 1500 s-1   B = -0.0151515 V   V1/2 = -0.039 V
Substituted beta(v) = 1500 * e (v - (-0.039))/-0.0151515
 
    Transition time course: tau from m0 to m
Generic expressiontau(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 elements1
Closed stateh0
Open stateh
 
    Transition: alpha from h0 to h
Expressionalpha(v) = A*exp((v-V1/2)/B)    (exponential)
Parameter values A = 120 s-1   B = -0.01123596 V   V1/2 = -0.05 V
Substituted alpha(v) = 120 * e (v - (-0.05))/-0.01123596
 
    Transition: beta from h to h0
Expressionbeta(v) = A*exp((v-V1/2)/B)    (exponential)
Parameter values A = 120 s-1   B = 0.01123596 V   V1/2 = -0.05 V
Substituted beta(v) = 120 * e (v - (-0.05))/0.01123596
 
    Transition time course: tau from h0 to h
Generic expressiontau(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