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kc_fast.channel.nml
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kc_fast.channel.nml
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<?xml version="1.0" encoding="ISO-8859-1"?>
<neuroml xmlns="http://www.neuroml.org/schema/neuroml2" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.neuroml.org/schema/neuroml2 https://raw.github.com/NeuroML/NeuroML2/development/Schemas/NeuroML2/NeuroML_v2beta4.xsd" id="kc_fast">
<notes>ChannelML file based on Traub et al. 2003</notes>
<ionChannel id="kc_fast" conductance="10pS" type="ionChannelHH" species="k">
<notes>Fast voltage and [Ca2+] dependent K conductance (BK channel). Based on NEURON port of FRB L2/3 model from Traub et al 2003. Same channel used in Traub et al 2005</notes>
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="kc_fast">
<bqmodel:isDescribedBy xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Bag>
<rdf:li>Roger D. Traub, Eberhard H. Buhl, Tengis Gloveli, and Miles A. Whittington
Fast Rhythmic Bursting Can Be Induced in Layer 2/3 Cortical Neurons by Enhancing Persistent Na+ Conductance or by Blocking BK Channels
J Neurophysiol 89: 909-921, 2003</rdf:li>
<rdf:li rdf:resource="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=12574468"/>
</rdf:Bag>
</bqmodel:isDescribedBy>
<bqmodel:isDescribedBy xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Bag>
<rdf:li>Roger D. Traub, Diego Contreras, Mark O. Cunningham, Hilary Murray, Fiona E. N. LeBeau, Anita Roopun, Andrea Bibbig, W. Bryan Wilent, Michael J. Higley, and Miles A. Whittington
Single-column thalamocortical network model exhibiting gamma oscillations, sleep spindles, and epileptogenic bursts.
J. Neurophysiol. 93, 2194-2232, 2005</rdf:li>
<rdf:li rdf:resource="http://www.ncbi.nlm.nih.gov/pubmed/15525801?dopt=Abstract"/>
</rdf:Bag>
</bqmodel:isDescribedBy>
<bqbiol:isVersionOf xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Bag>
<rdf:li>K channels</rdf:li>
<rdf:li rdf:resource="http://senselab.med.yale.edu/senselab/NeuronDB/channelGene2.htm#table3"/>
</rdf:Bag>
</bqbiol:isVersionOf>
</rdf:Description>
</rdf:RDF>
</annotation>
<baseConductanceScalingCaDependent type="cond_scaling_kc_fast"/>
<gate id="m" type="gateHHrates" instances="1">
<forwardRate type="kc_fast_m_alpha_rate"/>
<reverseRate type="kc_fast_m_beta_rate"/>
</gate>
</ionChannel>
<ComponentType name="cond_scaling_kc_fast" extends="baseConductanceScalingCaDependent">
<Constant name="CONC_SCALE" dimension="concentration" value="1 mol_per_cm3"/>
<Dynamics>
<DerivedVariable name="ca_conc" dimension="none" value="caConc / CONC_SCALE"/>
<ConditionalDerivedVariable name="factor" exposure="factor" dimension="none">
<Case condition="ca_conc .lt. ( 0.00025 )" value=" (ca_conc / 0.00025) "/>
<Case value=" 1"/>
</ConditionalDerivedVariable>
</Dynamics>
</ComponentType>
<ComponentType name="kc_fast_m_alpha_rate" extends="baseVoltageDepRate">
<Constant name="TIME_SCALE" dimension="time" value="1 ms"/>
<Constant name="VOLT_SCALE" dimension="voltage" value="1 mV"/>
<!--Note: this parameter (speedup_factor) should ideally be defined only once within the ionChannel! Work in progress...-->
<Constant name="speedup_factor" dimension="none" value="2"/>
<Dynamics>
<DerivedVariable name="V" dimension="none" value="v / VOLT_SCALE"/>
<ConditionalDerivedVariable name="r" exposure="r" dimension="per_time">
<Case condition="V .lt. ( -10 )" value="( speedup_factor * (2 / 37.95) * ( exp ( ((V + 50 ) / 11) - (( V + 53.5) / 27) ) ) ) / TIME_SCALE"/>
<Case value="( speedup_factor * 2 * (exp ( ( (-1 * V) - 53.5 ) / 27 ))) / TIME_SCALE"/>
</ConditionalDerivedVariable>
</Dynamics>
</ComponentType>
<ComponentType name="kc_fast_m_beta_rate" extends="baseVoltageDepRate">
<Constant name="TIME_SCALE" dimension="time" value="1 ms"/>
<Constant name="VOLT_SCALE" dimension="voltage" value="1 mV"/>
<!--Note: this parameter (speedup_factor) should ideally be defined only once within the ionChannel! Work in progress...-->
<Constant name="speedup_factor" dimension="none" value="2"/>
<Requirement name="alpha" dimension="per_time"/>
<Requirement name="beta" dimension="per_time"/>
<Dynamics>
<DerivedVariable name="V" dimension="none" value="v / VOLT_SCALE"/>
<DerivedVariable name="ALPHA" dimension="none" value="alpha * TIME_SCALE"/>
<DerivedVariable name="BETA" dimension="none" value="beta * TIME_SCALE"/>
<ConditionalDerivedVariable name="r" exposure="r" dimension="per_time">
<Case condition="V .lt. ( -10 )" value="( speedup_factor * 2 * (exp ( ( (-1 * V) - 53.5 ) / 27 )) - ALPHA ) / TIME_SCALE"/>
<Case value="( speedup_factor * 0.0) / TIME_SCALE"/>
</ConditionalDerivedVariable>
</Dynamics>
</ComponentType>
</neuroml>