Waugh2006 - Diabetic Wound Healing - Macrophage Dynamics
This a model from the article:
Macrophage dynamics in diabetic wound dealing.
Waugh HV, Sherratt JA. Bull Math Biol
2006 Jan;68(1):197-207 16794927
,
Abstract:
Wound healing in diabetes is a complex process, characterised by a chronic
inflammation phase. The exact mechanism by which this occurs is not fully
understood, and whilst several treatments for healing diabetic wounds exist,
very little research has been conducted towards the causes of the extended
inflammation phase. We describe a mathematical model which offers a possible
explanation for diabetic wound healing in terms of the distribution of
macrophage phenotypes being altered in the diabetic patient compared to normal
wound repair. As a consequence of this, we put forward a suggestion for
treatment based on rectifying the macrophage phenotype imbalance.
This model was taken from the CellML repository
and automatically converted to SBML.
The original model was:
Waugh HV, Sherratt JA. (2006) - 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.
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Macrophage dynamics in diabetic wound dealing.
- Waugh HV, Sherratt JA
- Bulletin of mathematical biology , 1/ 2006 , Volume 68 , Issue 1 , pages: 197-207 , PubMed ID: 16794927
- School of Mathematics and Computing, Heriot-Watt University, Riccarton, Edinburgh, EH14 4AS, UK. hwaugh@ma.hw.ac.uk
- Wound healing in diabetes is a complex process, characterised by a chronic inflammation phase. The exact mechanism by which this occurs is not fully understood, and whilst several treatments for healing diabetic wounds exist, very little research has been conducted towards the causes of the extended inflammation phase. We describe a mathematical model which offers a possible explanation for diabetic wound healing in terms of the distribution of macrophage phenotypes being altered in the diabetic patient compared to normal wound repair. As a consequence of this, we put forward a suggestion for treatment based on rectifying the macrophage phenotype imbalance.
Submitter of this revision: Sarubini Kananathan
Modellers: administrator, Camille Laibe, Sarubini Kananathan
Metadata information
isDescribedBy (1 statement)
hasTaxon (1 statement)
isVersionOf (1 statement)
hasProperty (1 statement)
Connected external resources
SBGN view in Newt Editor
| Name | Description | Size | Actions |
|---|---|---|---|
Model files |
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| Waugh2006_1.xml | SBML L2V4 representation of Waugh2006 - Diabetic Wound Healing - Macrophage Dynamics | 49.81 KB | Preview | Download |
Additional files |
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| BIOMD0000000679-biopax2.owl | Auto-generated BioPAX (Level 2) | 5.79 KB | Preview | Download |
| BIOMD0000000679-biopax3.owl | Auto-generated BioPAX (Level 3) | 6.26 KB | Preview | Download |
| BIOMD0000000679.m | Auto-generated Octave file | 3.75 KB | Preview | Download |
| BIOMD0000000679.pdf | Auto-generated PDF file | 148.04 KB | Preview | Download |
| BIOMD0000000679.png | Auto-generated Reaction graph (PNG) | 4.27 KB | Preview | Download |
| BIOMD0000000679.sci | Auto-generated Scilab file | 210.00 Bytes | Preview | Download |
| BIOMD0000000679.svg | Auto-generated Reaction graph (SVG) | 845.00 Bytes | Preview | Download |
| BIOMD0000000679.vcml | Auto-generated VCML file | 900.00 Bytes | Preview | Download |
| BIOMD0000000679.xpp | Auto-generated XPP file | 1.91 KB | Preview | Download |
| BIOMD0000000679_urn.xml | Auto-generated SBML file with URNs | 33.42 KB | Preview | Download |
| Waugh2006_1.cps | Curated and annotated copasi file. | 47.13 KB | Preview | Download |
| Waugh2006_1.sedml | SED-ML file to produce figure 2 (top and middle rows) of the reference publication. A parameter scan with one interval will change the value of alpha from 0.5 (normal) to 0.8 (diabetic). | 4.42 KB | Preview | Download |
- Model originally submitted by : Camille Laibe
- Submitted: Jun 23, 2010 10:11:49 AM
- Last Modified: Dec 5, 2018 1:37:27 PM
Revisions
-
Version: 5
- Submitted on: Dec 5, 2018 1:37:27 PM
- Submitted by: Sarubini Kananathan
- With comment: Automatically added model identifier BIOMD0000000679
-
Version: 3
- Submitted on: Mar 1, 2018 12:52:48 PM
- Submitted by: administrator
- With comment: Curated and annotated XML file
-
Version: 2
- Submitted on: Jun 25, 2010 1:01:19 PM
- Submitted by: Camille Laibe
- With comment: Current version of Waugh2006_WoundHealingMacrophageDynamics_Diabetic_ModelB
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Version: 1
- Submitted on: Jun 23, 2010 10:11:49 AM
- Submitted by: Camille Laibe
- With comment: Original import of Waugh2006_WoundHealingMacrophageDynamics_Diabetic_ModelB
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: Variable used inside SBML models
| Species | Initial Concentration/Amount |
|---|---|
| phi I macrophage ; inflammatory macrophage |
200.0 mol |
| T TGF-beta |
6.0 mol |
| phi R macrophage ; Wound Repair |
200.0 mol |
| K T monocyte ; monocyte migration into blood stream ; monocyte |
296.53 mol |
| Reactions | Rate | Parameters |
|---|---|---|
| phi_I = (alpha*K_T+k1*k2*phi_I*(1-k3*(phi_I+phi_R)))-d1*phi_I | (alpha*K_T+k1*k2*phi_I*(1-k3*(phi_I+phi_R)))-d1*phi_I | k3 = 0.002 0.001*m³; d1 = 0.2 1/(0.0115741*ms); k2 = 0.693 1/(0.0115741*ms); alpha = 0.8 1; k1 = 0.05 1 |
| T => | COMpartment*d2*T | d2 = 9.1 1/(0.0115741*ms) |
| => phi_I; K_T | COMpartment*alpha*K_T | alpha = 0.8 1 |
| => phi_I; phi_R | COMpartment*k1*k2*phi_I*(1-k3*(phi_I+phi_R)) | k3 = 0.002 0.001*m³; k2 = 0.693 1/(0.0115741*ms); k1 = 0.05 1 |
| T = k4*phi_I-d2*T | k4*phi_I-d2*T | k4 = 0.07 0.0864*µg/s; d2 = 9.1 1/(0.0115741*ms) |
| phi_I => | COMpartment*d1*phi_I | d1 = 0.2 1/(0.0115741*ms) |
| => phi_R; K_T | COMpartment*(1-alpha)*K_T | alpha = 0.8 1 |
| phi_R => | COMpartment*d1*phi_R | d1 = 0.2 1/(0.0115741*ms) |
| K_T = tau1*T^3+tau2*T^2+tau3*T+tau4 | [] | tau4 = 1.75 1/(0.0115741*m³*s); tau2 = 21.94 0.0864*mm³/(g²*s); tau1 = -2.47 8.64e-11*m^6/(g³*s); tau3 = 6.41 1/(11.5741*Mg*s) |
| => T; phi_I | COMpartment*k4*phi_I | k4 = 0.07 0.0864*µg/s |
(added: 01 Mar 2018, 15:00:30, updated: 01 Mar 2018, 15:00:30)