COMMENT
**************************************************
File generated by: neuroConstruct v1.7.1
**************************************************
This file holds the implementation in NEURON of the Cell Mechanism:
BK_IAMC_ChannelML (Type: Channel mechanism, Model: ChannelML based process)
with parameters:
/channelml/@units = SI Units
/channelml/notes = 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 ...
/channelml/channel_type/@name = BK_IAMC_ChannelML
/channelml/channel_type/status/@value = stable
/channelml/channel_type/status/issue = This ChannelML file is intended ONLY to replicate the original GENESIS functionality. A new Granule cell model is being developed based on D'Angelo ...
/channelml/channel_type/status/contributor/name = Padraig Gleeson
/channelml/channel_type/notes = Calcium dependent K+ channel
/channelml/channel_type/authorList/modelAuthor[1]/name = Maex, R.
/channelml/channel_type/authorList/modelAuthor[2]/name = De Schutter, E.
/channelml/channel_type/authorList/modelTranslator/name = Padraig Gleeson
/channelml/channel_type/authorList/modelTranslator/institution = UCL
/channelml/channel_type/authorList/modelTranslator/email = p.gleeson - at - ucl.ac.uk
/channelml/channel_type/publication/fullTitle = 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 Neu ...
/channelml/channel_type/publication/pubmedRef = http://www.ncbi.nlm.nih.gov/pubmed/9819260
/channelml/channel_type/neuronDBref/modelName = K channels
/channelml/channel_type/neuronDBref/uri = http://senselab.med.yale.edu/senselab/NeuronDB/channelGene2.htm#table3
/channelml/channel_type/current_voltage_relation/@cond_law = ohmic
/channelml/channel_type/current_voltage_relation/@ion = k
/channelml/channel_type/current_voltage_relation/@default_gmax = 0.15
/channelml/channel_type/current_voltage_relation/@default_erev = -0.0865
/channelml/channel_type/current_voltage_relation/conc_dependence/@name = Calcium
/channelml/channel_type/current_voltage_relation/conc_dependence/@ion = ca
/channelml/channel_type/current_voltage_relation/conc_dependence/@charge = 2
/channelml/channel_type/current_voltage_relation/conc_dependence/@variable_name = ca_conc
/channelml/channel_type/current_voltage_relation/conc_dependence/@min_conc = 7.55e-7
/channelml/channel_type/current_voltage_relation/conc_dependence/@max_conc = 0.050
/channelml/channel_type/current_voltage_relation/q10_settings/@q10_factor = 3
/channelml/channel_type/current_voltage_relation/q10_settings/@experimental_temp = 17.350264793
/channelml/channel_type/current_voltage_relation/offset/@value = 0.010
/channelml/channel_type/current_voltage_relation/gate[1]/@name = m
/channelml/channel_type/current_voltage_relation/gate[1]/@instances = 1
/channelml/channel_type/current_voltage_relation/gate[1]/closed_state/@id = m0
/channelml/channel_type/current_voltage_relation/gate[1]/open_state/@id = m
/channelml/channel_type/current_voltage_relation/gate[1]/transition[1]/@name = alpha
/channelml/channel_type/current_voltage_relation/gate[1]/transition[1]/@from = m0
/channelml/channel_type/current_voltage_relation/gate[1]/transition[1]/@to = m
/channelml/channel_type/current_voltage_relation/gate[1]/transition[1]/@expr_form = generic
/channelml/channel_type/current_voltage_relation/gate[1]/transition[1]/@expr = 2500/(1 + ( (1.5e-3 *(exp (-85*v))) / ca_conc))
/channelml/channel_type/current_voltage_relation/gate[1]/transition[2]/@name = beta
/channelml/channel_type/current_voltage_relation/gate[1]/transition[2]/@from = m
/channelml/channel_type/current_voltage_relation/gate[1]/transition[2]/@to = m0
/channelml/channel_type/current_voltage_relation/gate[1]/transition[2]/@expr_form = generic
/channelml/channel_type/current_voltage_relation/gate[1]/transition[2]/@expr = 1500/(1 + (ca_conc / (1.5e-4 * (exp (-77*v)))))
/channelml/channel_type/current_voltage_relation/gate[2]/@name = n
/channelml/channel_type/current_voltage_relation/gate[2]/@instances = 1
/channelml/channel_type/current_voltage_relation/gate[2]/closed_state/@id = n0
/channelml/channel_type/current_voltage_relation/gate[2]/open_state/@id = n
/channelml/channel_type/current_voltage_relation/gate[2]/time_course/@name = tau
/channelml/channel_type/current_voltage_relation/gate[2]/time_course/@from = n0
/channelml/channel_type/current_voltage_relation/gate[2]/time_course/@to = n
/channelml/channel_type/current_voltage_relation/gate[2]/time_course/@expr_form = generic
/channelml/channel_type/current_voltage_relation/gate[2]/time_course/@expr = 0.005
/channelml/channel_type/current_voltage_relation/gate[2]/steady_state/@name = inf
/channelml/channel_type/current_voltage_relation/gate[2]/steady_state/@from = n0
/channelml/channel_type/current_voltage_relation/gate[2]/steady_state/@to = n
/channelml/channel_type/current_voltage_relation/gate[2]/steady_state/@expr_form = generic
/channelml/channel_type/current_voltage_relation/gate[2]/steady_state/@expr = 1
// File from which this was generated: /home/Simon/NML2_Test/AOB_MC_neuroConstruct/cellMechanisms/BK_IAMC_ChannelML/KCa_chan.xml
// XSL file with mapping to simulator: /home/Simon/NML2_Test/AOB_MC_neuroConstruct/cellMechanisms/BK_IAMC_ChannelML/ChannelML_v1.8.1_NEURONmod.xsl
ENDCOMMENT
? This is a NEURON mod file generated from a ChannelML file
? Unit system of original ChannelML file: SI Units
COMMENT
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
ENDCOMMENT
TITLE Channel: BK_IAMC_ChannelML
COMMENT
Calcium dependent K+ channel
ENDCOMMENT
UNITS {
(mA) = (milliamp)
(mV) = (millivolt)
(S) = (siemens)
(um) = (micrometer)
(molar) = (1/liter)
(mM) = (millimolar)
(l) = (liter)
}
NEURON {
SUFFIX BK_IAMC_ChannelML
USEION k READ ek WRITE ik VALENCE 1 ? reversal potential of ion is read, outgoing current is written
USEION ca READ cai VALENCE 2 ? internal concentration of ion is read
RANGE gmax, gion
RANGE minf, mtau
RANGE ninf, ntau
}
PARAMETER {
gmax = 0.000014999999999999999 (S/cm2) ? default value, should be overwritten when conductance placed on cell
}
ASSIGNED {
v (mV)
celsius (degC)
? Reversal potential of k
ek (mV)
? The outward flow of ion: k calculated by rate equations...
ik (mA/cm2)
? The internal concentration of ion: ca is used in the rate equations...
cai (mM)
gion (S/cm2)
minf
mtau (ms)
ninf
ntau (ms)
}
BREAKPOINT {
SOLVE states METHOD derivimplicit
gion = gmax * (m
^1) * (n
^1)
ik = gion*(v - ek)
}
INITIAL {
ek = -86.5
settables(v,cai)
m = minf
n = ninf
}
STATE {
m
n
}
DERIVATIVE states {
settables(v,cai)
m' = (minf - m)/mtau
n' = (ninf - n)/ntau
}
PROCEDURE settables(v(mV), cai(mM)) {
? Note: not all of these may be used, depending on the form of rate equations
LOCAL alpha, beta, tau, inf, gamma, zeta, ca_conc
, temp_adj_m
, temp_adj_n
UNITSOFF
? There is a Q10 factor which will alter the tau of the gates
temp_adj_m = 3^((celsius - 17.350264793)/10)
temp_adj_n = 3^((celsius - 17.350264793)/10)
? There is a voltage offset of 0.010. This will shift the dependency of the rate equations
v = v - (10)
? Gate depends on the concentration of ca
ca_conc = cai ? In NEURON, the variable for the concentration of ca is cai
? *** Adding rate equations for gate: m ***
? Found a generic form of the rate equation for alpha, using expression: 2500/(1 + ( (1.5e-3 *(exp (-85*v))) / ca_conc))
? Note: Equation (and all ChannelML file values) in SI Units so need to convert v first...
v = v * 0.001 ? temporarily set v to units of equation...
alpha = 2500/(1 + ( (1.5e-3 *(exp (-85*v))) / ca_conc))
? Set correct units of alpha for NEURON
alpha = alpha * 0.001
v = v * 1000 ? reset v
? Found a generic form of the rate equation for beta, using expression: 1500/(1 + (ca_conc / (1.5e-4 * (exp (-77*v)))))
? Note: Equation (and all ChannelML file values) in SI Units so need to convert v first...
v = v * 0.001 ? temporarily set v to units of equation...
beta = 1500/(1 + (ca_conc / (1.5e-4 * (exp (-77*v)))))
? Set correct units of beta for NEURON
beta = beta * 0.001
v = v * 1000 ? reset v
mtau = 1/(temp_adj_m*(alpha + beta))
minf = alpha/(alpha + beta)
? *** Finished rate equations for gate: m ***
? *** Adding rate equations for gate: n ***
? Found a generic form of the rate equation for tau, using expression: 0.005
? Note: Equation (and all ChannelML file values) in SI Units so need to convert v first...
v = v * 0.001 ? temporarily set v to units of equation...
tau = 0.005
? Set correct units of tau for NEURON
tau = tau * 1000
v = v * 1000 ? reset v
ntau = tau/temp_adj_n
? Found a generic form of the rate equation for inf, using expression: 1
? Note: Equation (and all ChannelML file values) in SI Units so need to convert v first...
v = v * 0.001 ? temporarily set v to units of equation...
inf = 1
v = v * 1000 ? reset v
ninf = inf
? *** Finished rate equations for gate: n ***
}
UNITSON
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