Viewing XML file: NeuroMLFiles/Examples/ChannelML/GranuleCell.xml

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<?xml version="1.0" encoding="UTF-8"?>
<neuroml xmlns="http://morphml.org/neuroml/schema"
        xmlns:meta="http://morphml.org/metadata/schema"
        xmlns:mml="http://morphml.org/morphml/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/v1.8.1/Level2/NeuroML_Level2_v1.8.1.xsd"
        length_units="micrometer"
>

        
    
<cells>
        
<cell name="GranuleCell">
            
<meta:notes>A single compartment cerebellar Granule Cell model taken from Maex and De Schutter 1998</meta:notes>

            
<meta:authorList>
                
<meta:modelAuthor>
                    
<meta:name>Maex, R.</meta:name>
                
</meta:modelAuthor>
                
<meta:modelAuthor>
                    
<meta:name>De Schutter, E.</meta:name>
                
</meta:modelAuthor>
                
<meta:modelTranslator>
                    
<meta:name>Padraig Gleeson</meta:name>
                    
<meta:institution>UCL</meta:institution>    
                    
<meta:email>p.gleeson - at - ucl.ac.uk</meta:email>
                
</meta:modelTranslator>
            
</meta:authorList>

            
<meta:publication>
                
<meta: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 Neurophysiol, Nov 1998; 80: 2521 - 2537
</meta:fullTitle>
                
<meta:pubmedRef>http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&amp;db=PubMed&amp;list_uids=9819260&amp;dopt=Abstract</meta:pubmedRef>
            
</meta:publication>
                      
          
            
<meta:neuronDBref>
                
<meta:modelName>Cerebellar granule cell</meta:modelName>
                
<meta:uri>http://senselab.med.yale.edu/senselab/neurondb/ndbEavSum.asp?id=7346&amp;mo=2</meta:uri>
            
</meta:neuronDBref>
            
            
            
            
<mml:segments>
                
<mml:segment id="0" name="Soma" cable="0">
                    
<mml:proximal x="0.0" y="0.0" z="0.0" diameter="10.0"/>
                    
<mml:distal x="0.0" y="0.0" z="0.0" diameter="10.0"/>
                
</mml:segment>
            
</mml:segments>
            
<mml:cables>
                
<mml:cable id="0" name="Soma">
                    
<meta:group>all</meta:group>
                    
<meta:group>soma_group</meta:group>
                
</mml:cable>
            
</mml:cables>
            
            
<!--Adding the biophysical parameters-->
            
            
<biophysics units="Physiological Units">
                
<bio:mechanism name="Generic_Na" type="Channel Mechanism">
                    
<bio:parameter name="gmax" value="54.6301">
                        
<bio:group>all</bio:group>
                    
</bio:parameter>
                
</bio:mechanism>
                
<bio:mechanism name="Generic_H" type="Channel Mechanism">
                    
<bio:parameter name="gmax" value="0.03090506">
                        
<bio:group>all</bio:group>
                    
</bio:parameter>
                
</bio:mechanism>
                
<bio:mechanism name="Generic_KA" type="Channel Mechanism">
                    
<bio:parameter name="gmax" value="1.14567">
                        
<bio:group>all</bio:group>
                    
</bio:parameter>
                
</bio:mechanism>
                
<bio:mechanism name="Generic_KDr" type="Channel Mechanism">
                    
<bio:parameter name="gmax" value="8.89691">
                        
<bio:group>all</bio:group>
                    
</bio:parameter>
                
</bio:mechanism>
                
<bio:mechanism name="PassiveCond_Gran" type="Channel Mechanism">
                    
<bio:parameter name="gmax" value="0.0330033">
                        
<bio:group>all</bio:group>
                    
</bio:parameter>
                
</bio:mechanism>
                
<bio:mechanism name="Generic_CaHVA" type="Channel Mechanism">
                    
<bio:parameter name="gmax" value="0.9084216">
                        
<bio:group>all</bio:group>
                    
</bio:parameter>
                
</bio:mechanism>
                
<bio:mechanism name="Generic_KCa" type="Channel Mechanism">
                    
<bio:parameter name="gmax" value="17.9811">
                        
<bio:group>all</bio:group>
                    
</bio:parameter>
                
</bio:mechanism>
                
<bio:mechanism name = "CaPool" type = "Ion Concentration">
                        
<!-- Note: not adding gmax for Ion Concentration. Value for scaling factor
                        to apply to current to get change in conc should be determined from ChannelML
                        file for the CaPool... -->

                
</bio:mechanism>
                
<bio:spec_capacitance>
                    
<bio:parameter value="1.0">
                        
<bio:group>all</bio:group>
                    
</bio:parameter>
                
</bio:spec_capacitance>
                
<bio:spec_axial_resistance>
                    
<bio:parameter value="0.1">
                        
<bio:group>all</bio:group>
                    
</bio:parameter>
                
</bio:spec_axial_resistance>
                
<bio:init_memb_potential>
                    
<bio:parameter value="-65.0">
                        
<bio:group>all</bio:group>
                    
</bio:parameter>
                
</bio:init_memb_potential>
                
<bio:ion_props name = "h">
                    
<bio:parameter name = "e" value = "-42.0">
                        
<bio:group>all</bio:group>
                    
</bio:parameter>
                
</bio:ion_props>
                
<bio:ion_props name = "k">
                    
<bio:parameter name = "e" value = "-90.0">
                        
<bio:group>all</bio:group>
                    
</bio:parameter>
                
</bio:ion_props>
                
<bio:ion_props name = "na">
                    
<bio:parameter name = "e" value = "55.0">
                        
<bio:group>all</bio:group>
                    
</bio:parameter>
                
</bio:ion_props>
                
<bio:ion_props name = "ca">
                    
<bio:parameter name = "conc_e" value = "2.4E-6">
                        
<bio:group>all</bio:group>
                    
</bio:parameter>
                    
<bio:parameter name = "conc_i" value = "7.55E-11">
                        
<bio:group>all</bio:group>
                    
</bio:parameter>
                
</bio:ion_props>
            
</biophysics>
                

        
</cell>
    
</cells>
</neuroml>