<?xml version="1.0" encoding="UTF-8"?>
<neuroml xmlns="http://morphml.org/neuroml/schema"
xmlns:mml="http://morphml.org/morphml/schema"
xmlns:meta="http://morphml.org/metadata/schema"
xmlns:bio="http://morphml.org/biophysics/schema"
xmlns:cml="http://morphml.org/channelml/schema"
xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
xsi:schemaLocation="http://morphml.org/neuroml/schema http://www.neuroml.org/NeuroMLValidator/NeuroMLFiles/Schemata/v1.8.0/Level3/NeuroML_Level3_v1.8.0.xsd"
name = "NeuroML Level 1 file exported from NEURON"
lengthUnits="micron">
<meta:notes>author: Aditya Gilra adapted from Cleland and Sethupathy 2006.</meta:notes>
<cells>
<cell name="PG">
<meta:notes>Cell: periglomerular morphml written by hand by Aditya.</meta:notes>
<segments xmlns="http://morphml.org/morphml/schema"> <!-- Changing the namespace from neuroml to morphml-->
<!-- Section: soma -->
<segment id="0" name = "soma" cable = "0">
<proximal x="0" y="0" z="0" diameter="8"/>
<distal x="8" y="0" z="0" diameter="8"/>
</segment>
<!-- Section: dendrites -->
<segment id="1" name = "dend0" parent="0" cable = "1"> <!-- Connected at 1 on parent section: soma -->
<proximal x="8" y="0" z="0" diameter="1"/>
<distal x="28" y="0" z="0" diameter="1"/>
</segment>
<segment id="2" name = "dend1" parent="0" cable = "2"> <!-- Connected at 1 on parent section: soma -->
<proximal x="8" y="0" z="0" diameter="1"/>
<distal x="8" y="20" z="0" diameter="1"/>
</segment>
<segment id="3" name = "spineneck0" parent="1" cable = "3"> <!-- Connected at 1 on parent section: soma -->
<proximal x="28" y="0" z="0" diameter="0.1"/>
<distal x="28.5" y="0" z="0" diameter="0.1"/>
</segment>
<segment id="4" name = "spinehead0" parent="3" cable = "4"> <!-- Connected at 1 on parent section: soma -->
<proximal x="28.5" y="0" z="0" diameter="1"/>
<distal x="29" y="0" z="0" diameter="1"/>
</segment>
<segment id="5" name = "spineneck1" parent="2" cable = "5"> <!-- Connected at 1 on parent section: soma -->
<proximal x="8" y="20" z="0" diameter="0.1"/>
<distal x="8" y="20.5" z="0" diameter="0.1"/>
</segment>
<segment id="6" name = "spinehead1" parent="5" cable = "6"> <!-- Connected at 1 on parent section: soma -->
<proximal x="8" y="20.5" z="0" diameter="1"/>
<distal x="8" y="21" z="0" diameter="1"/>
</segment>
</segments>
<cables xmlns="http://morphml.org/morphml/schema"> <!-- Changing namespace from neuroml to morphml-->
<!--
<cable id="0" name="soma">
<meta:group>all</meta:group>
<meta:group>somagroup</meta:group>
</cable>
<cable id="1" name="dend0">
<meta:group>all</meta:group>
<meta:group>periphery</meta:group>
<meta:group>dendrites</meta:group>
</cable>
<cable id="2" name="dend1">
<meta:group>all</meta:group>
<meta:group>periphery</meta:group>
<meta:group>dendrites</meta:group>
</cable>
<cable id="3" name="spineneck0">
<meta:group>all</meta:group>
<meta:group>periphery</meta:group>
</cable>
<cable id="4" name="spinehead0">
<meta:group>all</meta:group>
<meta:group>periphery</meta:group>
<meta:group>spineheads</meta:group>
</cable>
<cable id="5" name="spineneck1">
<meta:group>all</meta:group>
<meta:group>periphery</meta:group>
</cable>
<cable id="6" name="spinehead1">
<meta:group>all</meta:group>
<meta:group>periphery</meta:group>
<meta:group>spineheads</meta:group>
</cable>
-->
<cable id="0" name="soma"/>
<cable id="1" name="dend0"/>
<cable id="2" name="dend1"/>
<cable id="3" name="spineneck0"/>
<cable id="4" name="spinehead0"/>
<cable id="5" name="spineneck1"/>
<cable id="6" name="spinehead1"/>
<cablegroup name="all">
<cable id = "0"/>
<cable id = "1"/>
<cable id = "2"/>
<cable id = "3"/>
<cable id = "4"/>
<cable id = "5"/>
<cable id = "6"/>
</cablegroup>
<cablegroup name="somagroup">
<cable id = "0"/>
</cablegroup>
<cablegroup name="dendrites">
<cable id = "1"/>
<cable id = "2"/>
</cablegroup>
<cablegroup name="periphery">
<cable id = "1"/>
<cable id = "2"/>
<cable id = "3"/>
<cable id = "4"/>
<cable id = "5"/>
<cable id = "6"/>
</cablegroup>
<cablegroup name="spineheads">
<cable id = "4"/>
<cable id = "6"/>
</cablegroup>
</cables>
<biophysics units='Physiological Units'>
<!-- Note: values of cond dens are different in NEURON and phy units-->
<bio:mechanism xmlns:bio='http://morphml.org/biophysics/schema' passive_conductance='true' type='Channel Mechanism' name='pas'>
<bio:parameter name='gmax' value='0.5'> <!-- 3 ms time constant with CM=1microF/cm^2 --><!-- 1GigaOhm for 8micron dia soma gives 0.5 mS/cm^2-->
<bio:group>all</bio:group>
</bio:parameter>
<bio:parameter name='e' value='-70'>
<bio:group>all</bio:group>
</bio:parameter>
</bio:mechanism>
<bio:spec_capacitance xmlns:bio='http://morphml.org/biophysics/schema'>
<bio:parameter value='1.0'>
<bio:group>all</bio:group>
</bio:parameter>
</bio:spec_capacitance>
<bio:spec_axial_resistance xmlns:bio='http://morphml.org/biophysics/schema'>
<bio:parameter value='0.2'>
<bio:group>all</bio:group>
</bio:parameter>
</bio:spec_axial_resistance>
<bio:mechanism xmlns:bio='http://morphml.org/biophysics/schema' type='Channel Mechanism' name='Na_rat_ms'>
<bio:parameter name='gmax' value='15'>
<bio:group>somagroup</bio:group>
</bio:parameter>
<bio:parameter name='gmax' value='5'>
<bio:group>periphery</bio:group>
</bio:parameter>
</bio:mechanism>
<bio:mechanism xmlns:bio='http://morphml.org/biophysics/schema' type='Channel Mechanism' name='KDR_ms'>
<bio:parameter name='gmax' value='15'>
<bio:group>somagroup</bio:group>
</bio:parameter>
<bio:parameter name='gmax' value='5'>
<bio:group>periphery</bio:group>
</bio:parameter>
<bio:parameter name='e' value='-80'>
<bio:group>all</bio:group>
</bio:parameter>
</bio:mechanism>
<bio:mechanism xmlns:bio='http://morphml.org/biophysics/schema' type='Channel Mechanism' name='Ih_cb'>
<bio:parameter name='gmax' value='0.1'>
<bio:group>somagroup</bio:group>
</bio:parameter>
<bio:parameter name='gmax' value='0.1'>
<bio:group>periphery</bio:group>
</bio:parameter>
</bio:mechanism>
<bio:mechanism xmlns:bio='http://morphml.org/biophysics/schema' type='Channel Mechanism' name='TCa_d'>
<bio:parameter name='gmax' value='2.0'>
<bio:group>somagroup</bio:group>
</bio:parameter>
<bio:parameter name='gmax' value='2.0'>
<bio:group>periphery</bio:group>
</bio:parameter>
</bio:mechanism>
<bio:mechanism xmlns:bio='http://morphml.org/biophysics/schema' type='Channel Mechanism' name='KA_ms'>
<bio:parameter name='gmax' value='80.0'>
<bio:group>somagroup</bio:group>
</bio:parameter>
<bio:parameter name='gmax' value='10.0'>
<bio:group>periphery</bio:group>
</bio:parameter>
<bio:parameter name='e' value='-80'>
<bio:group>all</bio:group>
</bio:parameter>
</bio:mechanism>
<bio:mechanism xmlns:bio='http://morphml.org/biophysics/schema' type='Ion Concentration' name='Ca_mit_conc'>
<bio:parameter name='depth' value='0.125'>
<bio:group>somagroup</bio:group>
</bio:parameter>
<bio:parameter name='depth' value='0.125'>
<bio:group>dendrites</bio:group>
</bio:parameter>
<bio:parameter name='depth' value='0.125'>
<bio:group>spineheads</bio:group>
</bio:parameter>
</bio:mechanism>
</biophysics>
</cell>
</cells>
</neuroml>
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