Phillips2007_AscendingArousalSystem_SleepWakeDynamics

  public model
Model Identifier
BIOMD0000000917
Short description

This a model from the article:
A quantitative model of sleep-wake dynamics based on the physiology of the brainstem ascending arousal system.
Phillips AJ, Robinson PA. J Biol Rhythms 2007 Apr;22(2):167-79 17440218 ,
Abstract:
A quantitative, physiology-based model of the ascending arousal system is developed, using continuum neuronal population modeling, which involves averaging properties such as firing rates across neurons in each population. The model includes the ventrolateral preoptic area (VLPO), where circadian and homeostatic drives enter the system, the monoaminergic and cholinergic nuclei of the ascending arousal system, and their interconnections. The human sleep-wake cycle is governed by the activities of these nuclei, which modulate the behavioral state of the brain via diffuse neuromodulatory projections. The model parameters are not free since they correspond to physiological observables. Approximate parameter bounds are obtained by requiring consistency with physiological and behavioral measures, and the model replicates the human sleep-wake cycle, with physiologically reasonable voltages and firing rates. Mutual inhibition between the wake-promoting monoaminergic group and sleep-promoting VLPO causes ;;flip-flop'' behavior, with most time spent in 2 stable steady states corresponding to wake and sleep, with transitions between them on a timescale of a few minutes. The model predicts hysteresis in the sleep-wake cycle, with a region of bistability of the wake and sleep states. Reducing the monoaminergic-VLPO mutual inhibition results in a smaller hysteresis loop. This makes the model more prone to wake-sleep transitions in both directions and makes the states less distinguishable, as in narcolepsy. The model behavior is robust across the constrained parameter ranges, but with sufficient flexibility to describe a wide range of observed phenomena.

This model was taken from the CellML repository and automatically converted to SBML.
The original model was: Phillips AJ, Robinson PA. (2007) - version=1.0
The original CellML model was created by:
Catherine Lloyd
c.lloyd@auckland.ac.nz
The University of Auckland

This model originates from BioModels Database: A Database of Annotated Published Models (http://www.ebi.ac.uk/biomodels/). It is copyright (c) 2005-2011 The BioModels.net Team.
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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.

Format
SBML (L3V1)
Related Publication
  • A quantitative model of sleep-wake dynamics based on the physiology of the brainstem ascending arousal system.
  • Phillips AJ, Robinson PA
  • Journal of biological rhythms , 4/ 2007 , Volume 22 , pages: 167-179 , PubMed ID: 17440218
  • School of Physics, University of Sydney, New South Wales 2006, Australia. ajp@physics.usyd.edu.au
  • A quantitative, physiology-based model of the ascending arousal system is developed, using continuum neuronal population modeling, which involves averaging properties such as firing rates across neurons in each population. The model includes the ventrolateral preoptic area (VLPO), where circadian and homeostatic drives enter the system, the monoaminergic and cholinergic nuclei of the ascending arousal system, and their interconnections. The human sleep-wake cycle is governed by the activities of these nuclei, which modulate the behavioral state of the brain via diffuse neuromodulatory projections. The model parameters are not free since they correspond to physiological observables. Approximate parameter bounds are obtained by requiring consistency with physiological and behavioral measures, and the model replicates the human sleep-wake cycle, with physiologically reasonable voltages and firing rates. Mutual inhibition between the wake-promoting monoaminergic group and sleep-promoting VLPO causes ;;flip-flop'' behavior, with most time spent in 2 stable steady states corresponding to wake and sleep, with transitions between them on a timescale of a few minutes. The model predicts hysteresis in the sleep-wake cycle, with a region of bistability of the wake and sleep states. Reducing the monoaminergic-VLPO mutual inhibition results in a smaller hysteresis loop. This makes the model more prone to wake-sleep transitions in both directions and makes the states less distinguishable, as in narcolepsy. The model behavior is robust across the constrained parameter ranges, but with sufficient flexibility to describe a wide range of observed phenomena.
Contributors
Submitter of the first revision: Camille Laibe
Submitter of this revision: Ahmad Zyoud
Modellers: Camille Laibe, Ahmad Zyoud

Metadata information

is (3 statements)
BioModels Database MODEL1006230025
BioModels Database BIOMD0000000917
BioModels Database MODEL1006230025

isDescribedBy (1 statement)
PubMed 17440218

hasTaxon (1 statement)
Taxonomy Homo sapiens

isVersionOf (1 statement)
occursIn (1 statement)
Brenda Tissue Ontology brain stem

hasProperty (2 statements)
Mathematical Modelling Ontology Ordinary differential equation model
NCIt Sleep Study


Curation status
Curated


Tags

Connected external resources

SBGN view in Newt Editor

Name Description Size Actions

Model files

Phillips2007_Curated.xml SBML L2V4 representation of Phillips2007_AscendingArousalSystem_SleepWakeDynamics_Curated 50.04 KB Preview | Download

Additional files

MODEL1006230025-biopax2.owl Auto-generated BioPAX (Level 2) 1.07 KB Preview | Download
MODEL1006230025-biopax3.owl Auto-generated BioPAX (Level 3) 2.04 KB Preview | Download
MODEL1006230025.m Auto-generated Octave file 3.69 KB Preview | Download
MODEL1006230025.pdf Auto-generated PDF file 144.39 KB Preview | Download
MODEL1006230025.png Auto-generated Reaction graph (PNG) 0.00 Bytes Preview | Download
MODEL1006230025.sci Auto-generated Scilab file 215.00 Bytes Preview | Download
MODEL1006230025.svg Auto-generated Reaction graph (SVG) 851.00 Bytes Preview | Download
MODEL1006230025.vcml Auto-generated VCML file 900.00 Bytes Preview | Download
MODEL1006230025.xpp Auto-generated XPP file 2.63 KB Preview | Download
MODEL1006230025_urn.xml Auto-generated SBML file with URNs 16.75 KB Preview | Download
Phillips2007.cps COPASI version 4.27 (Build 217) Phillips2007_AscendingArousalSystem_SleepWakeDynamics_Curated 81.55 KB Preview | Download
Phillips2007.sedml sed-ml L1V2 Phillips2007_AscendingArousalSystem_SleepWakeDynamics_Curated 6.74 KB Preview | Download
Phillips2007_Orignal.xml SBML L2V4 Phillips2007_AscendingArousalSystem_SleepWakeDynamics_Original File 15.64 KB Preview | Download

  • Model originally submitted by : Camille Laibe
  • Submitted: Jun 23, 2010 10:12:01 AM
  • Last Modified: Mar 2, 2020 12:15:53 PM
Revisions
  • Version: 4 public model Download this version
    • Submitted on: Mar 2, 2020 12:15:53 PM
    • Submitted by: Ahmad Zyoud
    • With comment: Automatically added model identifier BIOMD0000000917
  • Version: 2 public model Download this version
    • Submitted on: Jun 25, 2010 1:34:19 PM
    • Submitted by: Camille Laibe
    • With comment: Current version of Phillips2007_AscendingArousalSystem_SleepWakeDynamics
  • Version: 1 public model Download this version
    • Submitted on: Jun 23, 2010 10:12:01 AM
    • Submitted by: Camille Laibe
    • With comment: Original import of Phillips2007_AscendingArousalSystem_SleepWakeDynamics

(*) You might be seeing discontinuous revisions as only public revisions are displayed here. Any private revisions unpublished model revision of this model will only be shown to the submitter and their collaborators.

Legends
: Variable used inside SBML models


Species
Species Initial Concentration/Amount
Ventrolateral preopticarea VLPO voltage

OMIT 0027571 ; OMIT 0026787 ; Signal ; C70813
-10.0 mol
Monoaminergic MA voltage

C70813 ; OMIT 0026787 ; C73238 ; C62025 ; Signal ; C2321
1.0 mol
Somnogen level H

C207
10.0 mol
Reactions
Reactions Rate Parameters
=> Ventrolateral_preopticarea__VLPO__voltage COMpartment*((v_vm*Qm+D)-Ventrolateral_preopticarea__VLPO__voltage)/(tau_v/3600) Qm = 4.74258731775668; tau_v = 10.0; D = -10.7; v_vm = -1.9
=> Monoaminergic__MA__voltage COMpartment*((v_maQao+v_mv*Qv)-Monoaminergic__MA__voltage)/(tau_m/3600) v_mv = -1.9; Qv = 0.127101626308136; v_maQao = 1.0; tau_m = 10.0
=> Somnogen_level_H COMpartment*(mu*Qm-Somnogen_level_H)/chi chi = 10.8; Qm = 4.74258731775668; mu = 3.6
Curator's comment:
(added: 02 Mar 2020, 12:14:57, updated: 02 Mar 2020, 12:14:57)
The Figures 5 and 7 have been successfully curated after changing the "mu" parameter from 0.001 into 3.6 The Figure 7 lack figures 7c and 7f, because for Fig7c the parameter "mu" was not correct and for the Fig7f the parameter "A" was not involved in any of the equations that involved in the model.