Cerebellar purkinje cell (De Schutter and Bower 1994)

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Tutorial simulation of a cerebellar Purkinje cell. This tutorial is based upon a GENESIS simulation of a cerebellar Purkinje cell, modeled and fine-tuned by Erik de Schutter. The tutorial assumes that you have a basic knowledge of the Purkinje cell and its synaptic inputs. It gives visual insight in how different properties as concentrations and channel conductances vary and interact within a real Purkinje cell.
1 . De Schutter E, Bower JM (1994) An active membrane model of the cerebellar Purkinje cell. I. Simulation of current clamps in slice. J Neurophysiol 71:375-400 [PubMed]
2 . De Schutter E, Bower JM (1994) An active membrane model of the cerebellar Purkinje cell II. Simulation of synaptic responses. J Neurophysiol 71:401-19 [PubMed]
3 . Staub C, De Schutter E, Knöpfel T (1994) Voltage-imaging and simulation of effects of voltage- and agonist-activated conductances on soma-dendritic voltage coupling in cerebellar Purkinje cells. J Comput Neurosci 1:301-11 [PubMed]
4 . De Schutter E, Bower JM (1994) Simulated responses of cerebellar Purkinje cells are independent of the dendritic location of granule cell synaptic inputs. Proc Natl Acad Sci U S A 91:4736-40 [PubMed]
5 . De Schutter E (1998) Dendritic voltage and calcium-gated channels amplify the variability of postsynaptic responses in a Purkinje cell model. J Neurophysiol 80:504-19 [PubMed]
6 . Jaeger D, De Schutter E, Bower JM (1997) The role of synaptic and voltage-gated currents in the control of Purkinje cell spiking: a modeling study. J Neurosci 17:91-106 [PubMed]
7 . de Schutter E (1994) Modelling the cerebellar Purkinje cell: experiments in computo. Prog Brain Res 102:427-41 [PubMed]
8 . De Schutter E (1997) A new functional role for cerebellar long-term depression. Prog Brain Res 114:529-42 [PubMed]
9 . Steuber V, Mittmann W, Hoebeek FE, Silver RA, De Zeeuw CI, Häusser M, De Schutter E (2007) Cerebellar LTD and pattern recognition by Purkinje cells. Neuron 54:121-36 [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Neuron or other electrically excitable cell;
Brain Region(s)/Organism:
Cell Type(s): Cerebellum Purkinje GABA cell;
Channel(s): I Na,p; I Na,t; I T low threshold; I p,q; I A; I K; I M; I K,Ca; I Sodium; I Calcium; I Potassium;
Gap Junctions:
Simulation Environment: GENESIS;
Model Concept(s): Activity Patterns; Dendritic Action Potentials; Active Dendrites; Detailed Neuronal Models; Tutorial/Teaching; Synaptic Integration;
Implementer(s): Cornelis, Hugo [hugo at bbf.uia.ac.be]; Airong, Dong [tard at fimmu.com];
Search NeuronDB for information about:  Cerebellum Purkinje GABA cell; I Na,p; I Na,t; I T low threshold; I p,q; I A; I K; I M; I K,Ca; I Sodium; I Calcium; I Potassium;
//genesis - Purkinje cell version M9 genesis2 master script
// $Id: makeconfig.g Thu, 04 Apr 2002 12:46:38 +0200 hugo $

//' Purkinje tutorial
//' (C) 1998-2002 BBF-UIA
//' see our site at http://www.bbf.uia.ac.be/ for more information regarding
//' the Purkinje cell and genesis simulation software.
//' functional ideas ... Erik De Schutter, erik@bbf.uia.ac.be
//' genesis coding ..... Hugo Cornelis, hugo@bbf.uia.ac.be
//' general feedback ... Reinoud Maex, Erik De Schutter

//- give header

echo "--------------------------------------------------------------------------"
echo "Purkinje tutorial, version " -n
// $Format: "echo \"$ProjectVersion$ ($ProjectDate$)\""$
echo "Release1.3.2 (Thu, 04 Apr 2002 12:46:38 +0200)"
echo "                      Configuration script"
echo "--------------------------------------------------------------------------"

//- include default definitions

include defaults.g

//- include Purkinje cell constants

include Purk_const 

//- cell path of cell to simulate

str cellpath =  "/Purkinje"

//- cell that is read from pattern file

include cell.g

//- set default output rate

int outputRate = 10

//- set default chanmode for solver : normalized

int iChanMode = 5

//- set default mode : in vitro

int iVVMode = 0

//- set default for current : no current

int iCurrentMode = 1

//- in vivo : parallel cell firing rate

float phertz = 25

//- in vivo : basket cell firing rate

float ihertz = 1

//- speed of climbing fiber volley (in sec)

float delay = 0.00020

//- strength of climging fiber synapses

float strength = 1.0

//- speed of climbing fiber volley (in steps == delay / dt)
//- this variable is set later on when dt is defined in an other module

int delaysteps = 0.00020 / 1

//! The tabchannels need an update when changing from 
//! little-endian to big-endian. I don't see a way to figure this out from
//! the script level. I use the hosttype in the HOSTTYPE shell variable as a
//! guideline for an update of the tabchannels.

//- include the utility module, it is needed by multiple others modules,
//- but since I do not like multiple includes, I include it here.

include utility.g

//- include the config module

include config.g

//- ensure that all elements are made in the library

ce /library

/* userprefs is for loading the preferred set of prototypes into
** the library and assigning new values to the defaults.
** A customised copy of userprefs.g usually lives in  the local
** directory where the simulation is going to be run from */

//- include scripts to create the prototypes

include Purk_chansave.g
include Purk_cicomp 
include Purk_syn 

include info.g
include config.g
include control.g
include xcell.g
include xgraph.g

//- ensure that all elements are made in the library

ce /library

//- make prototypes of channels and synapses


//- set the firing frequencies at the library level
//- this forces the hsolve object to reserve space for these fields

setfield /library/GABA frequency {ihertz}
setfield /library/non_NMDA frequency {phertz}

//- add fields to the library elements to respect the vivo / vitro mode

addfield /library/GABA freqmode -description "frequency operation mode"
addfield /library/non_NMDA freqmode -description "frequency operation mode"

//- set the added fields to the current vivo/vitro mode

setfield /library/GABA freqmode {iVVMode}
setfield /library/non_NMDA freqmode {iVVMode}

//- add fields to distinguish between inhibition excitation

addfield /library/GABA synmode -description "synaptic mode"
addfield /library/non_NMDA synmode -description "synaptic mode"

//- set field to "in" for inhibition

setfield /library/GABA synmode "in"

//- set field to "ex" for excitation

setfield /library/non_NMDA synmode "ex"

//- make prototypes of compartements and spines


//- read cell data from .p file

readcell {cellfile} {cellpath}

//- update the config file

ConfigWrite {cellfile} {cellpath}

//- exit from genesis


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