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BIOMD0000000118 - Golomb2006_SomaticBursting

 

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Reference Publication
Publication ID: 16807352
Golomb D, Yue C, Yaari Y.
Contribution of persistent Na+ current and M-type K+ current to somatic bursting in CA1 pyramidal cells: combined experimental and modeling study.
J. Neurophysiol. 2006 Oct; 96(4): 1912-1926
Department of Physiology and Zlotowski Center for Neuroscience, Faculty of Health Sciences, Ben-Gurion University, Be'er-Sheva, Israel. golomb@bgu.ac.il  [more]
Model
Original Model: http://senselab.med.yale.e...
Submitter: Enuo He
Submission ID: MODEL1243247625
Submission Date: 20 Jun 2007 09:26:23 UTC
Last Modification Date: 05 Jul 2012 16:50:21 UTC
Creation Date: 06 Jun 2007 14:28:40 UTC
Encoders:  Enuo He
set #1
bqbiol:isVersionOf Gene Ontology neuronal action potential propagation
Gene Ontology voltage-gated sodium channel activity
Gene Ontology voltage-gated potassium channel activity
bqbiol:occursIn Taxonomy Rattus
Notes

Model is according to the paper Contribution of Persistent Na+ Current and M-Type K+ Current to Somatic Bursting in CA1 Pyramidal Cell: Combined Experimental. Figure6Da has been reproduced by MathSBML. The original model from ModelDB. http://senselab.med.yale.edu/modeldb/


To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to CC0 Public Domain Dedication for more information.

In summary, you are entitled to use this encoded model in absolutely any manner you deem suitable, verbatim, or with modification, alone or embedded it in a larger context, redistribute it, commercially or not, in a restricted way or not.


To cite BioModels Database, please use: Li C, Donizelli M, Rodriguez N, Dharuri H, Endler L, Chelliah V, Li L, He E, Henry A, Stefan MI, Snoep JL, Hucka M, Le Novère N, Laibe C (2010) BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. BMC Syst Biol., 4:92.

Model
Publication ID: 16807352 Submission Date: 20 Jun 2007 09:26:23 UTC Last Modification Date: 05 Jul 2012 16:50:21 UTC Creation Date: 06 Jun 2007 14:28:40 UTC
Mathematical expressions
Rules
Assignment Rule (variable: Minfs) Assignment Rule (variable: Pinfs) Assignment Rule (variable: Ainfs) Assignment Rule (variable: IA)
Assignment Rule (variable: Iz) Assignment Rule (variable: INa) Assignment Rule (variable: INaP) Assignment Rule (variable: IKdr)
Rate Rule (variable: zzs) Rate Rule (variable: bbs) Rate Rule (variable: hhs) Rate Rule (variable: VVs)
Rate Rule (variable: nns)      
Physical entities
Compartments Species
compartment_0000001      
Global parameters
Cm pms pns VNa
t_tauh t_taun thetaa sigmaa
thetab sigmab tauBs sigmam
sigmah sigman sigmaz gNa
gKdr gL Iapp gA
gNaP gZ thetaz tauZs
phi thetah thetam thetan
thetap sigmap VK VL
INa INaP IKdr IA
Iz Minfs Pinfs Ainfs
zzs bbs nns hhs
VVs      
Reactions (0)
Rules (13)
 
 Assignment Rule (name: Minfs) Minfs = GAMMAF(V, thetam, sigmam)
 
 Assignment Rule (name: Pinfs) Pinfs = GAMMAF(V, thetap, sigmap)
 
 Assignment Rule (name: Ainfs) Ainfs = GAMMAF(V, thetaa, sigmaa)
 
 Assignment Rule (name: IA) IA = gA*Ainfs^3*bbs*(V-VK)
 
 Assignment Rule (name: Iz) Iz = gZ*zzs*(V-VK)
 
 Assignment Rule (name: INa) INa = gNa*Minfs^pms*hhs*(V-VNa)
 
 Assignment Rule (name: INaP) INaP = gNaP*Pinfs*(V-VNa)
 
 Assignment Rule (name: IKdr) IKdr = gKdr*nns^pns*(V-VK)
 
 Rate Rule (name: zzs) d [ zzs] / d t= (GAMMAF(V, thetaz, sigmaz)-zzs)/tauZs
 
 Rate Rule (name: bbs) d [ bbs] / d t= (GAMMAF(V, thetab, sigmab)-bbs)/tauBs
 
 Rate Rule (name: hhs) d [ hhs] / d t= phi*(GAMMAF(V, thetah, sigmah)-hhs)/(1+7.5*GAMMAF(V, t_tauh, -6))
 
 Rate Rule (name: V) d [ VVs] / d t= ((-gL)*(V-VL)-INa-INaP-IKdr-IA-Iz+Iapp)/Cm
 
 Rate Rule (name: nns) d [ nns] / d t= phi*(GAMMAF(V, thetan, sigman)-nns)/(1+5*GAMMAF(V, t_taun, -15))
 
Functions (1)
 
 GAMMAF lambda(VV, theta, sigma, 1/(1+exp((-(VV-theta))/sigma)))
 
  Spatial dimensions: 3.0  Compartment size: 1.0
Global Parameters (45)
 
   Cm
Value: 1.0
Constant
 
   pms
Value: 3.0
Constant
 
   pns
Value: 4.0
Constant
 
   VNa
Value: 55.0
Constant
 
   t_tauh
Value: -40.5
Constant
 
   t_taun
Value: -27.0
Constant
 
   thetaa
Value: -50.0
Constant
 
   sigmaa
Value: 20.0
Constant
 
   thetab
Value: -80.0
Constant
 
   sigmab
Value: -6.0
Constant
 
   tauBs
Value: 15.0
Constant
 
   sigmam
Value: 9.5
Constant
 
   sigmah
Value: -7.0
Constant
 
   sigman
Value: 10.0
Constant
 
   sigmaz
Value: 5.0
Constant
 
   gNa
Value: 35.0
Constant
 
   gKdr
Value: 6.0
Constant
 
   gL
Value: 0.05
Constant
 
   Iapp
Value: 0.661914
Constant
 
   gA
Value: 1.4
Constant
 
   gNaP
Value: 0.3
Constant
 
   gZ
Value: 1.0
Constant
 
   thetaz
Value: -39.0
Constant
 
   tauZs
Value: 75.0
Constant
 
   phi
Value: 10.0
Constant
 
   thetah
Value: -45.0
Constant
 
   thetam
Value: -30.0
Constant
 
   thetan
Value: -35.0
Constant
 
   thetap
Value: -47.0
Constant
 
   sigmap
Value: 3.0
Constant
 
   VK
Value: -90.0
Constant
 
   VL
Value: -70.0
Constant
 
   INa
Value: NaN
 
   INaP
Value: NaN
 
   IKdr
Value: NaN
 
   IA
Value: NaN
 
   Iz
Value: NaN
 
   Minfs
Value: NaN
 
   Pinfs
Value: NaN
 
   Ainfs
Value: NaN
 
   zzs
Value: 0.00141
 
   bbs
Value: 0.203517
 
   nns
Value: 0.02457
 
   hhs
Value: 0.98786
 
   VVs
Value: -71.81327
 
Representative curation result(s)
Representative curation result(s) of BIOMD0000000118

Curator's comment: (updated: 09 Aug 2007 21:19:59 BST)

Figure6Da has been simulated by MathSBML.

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