Gardner1998 - Cell Cycle Goldbeter
View the 2013-04 Model of the Month entry for this modelMathematical modeling of cell division cycle (CDC) dynamics.
The SBML file has been generated by MathSBML 2.6.0.p960929 (Prerelease Version of 29-Sept-2006) 1-October-2006 15:36:36.076517.
This model is described in the article:
Abstract:
We demonstrate, by using mathematical modeling of cell division cycle (CDC) dynamics, a potential mechanism for precisely controlling the frequency of cell division and regulating the size of a dividing cell. Control of the cell cycle is achieved by artificially expressing a protein that reversibly binds and inactivates any one of the CDC proteins. In the simplest case, such as the checkpoint-free situation encountered in early amphibian embryos, the frequency of CDC oscillations can be increased or decreased by regulating the rate of synthesis, the binding rate, or the equilibrium constant of the binding protein. In a more complex model of cell division, where size-control checkpoints are included, we show that the same reversible binding reaction can alter the mean cell mass in a continuously dividing cell. Because this control scheme is general and requires only the expression of a single protein, it provides a practical means for tuning the characteristics of the cell cycle in vivo.
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A theory for controlling cell cycle dynamics using a reversibly binding inhibitor.
- T S Gardner, M Dolnik, J J Collins
- Proceedings of the National Academy of Sciences of the United States of America , 11/ 1998 , Volume 95 , Issue 24 , pages: 14190-14195 , PubMed ID: 9826676
- Center for BioDynamics and Department of Biomedical Engineering, Boston University, 44 Cummington Street, Boston, MA 02215, USA.
- We demonstrate, by using mathematical modeling of cell division cycle (CDC) dynamics, a potential mechanism for precisely controlling the frequency of cell division and regulating the size of a dividing cell. Control of the cell cycle is achieved by artificially expressing a protein that reversibly binds and inactivates any one of the CDC proteins. In the simplest case, such as the checkpoint-free situation encountered in early amphibian embryos, the frequency of CDC oscillations can be increased or decreased by regulating the rate of synthesis, the binding rate, or the equilibrium constant of the binding protein. In a more complex model of cell division, where size-control checkpoints are included, we show that the same reversible binding reaction can alter the mean cell mass in a continuously dividing cell. Because this control scheme is general and requires only the expression of a single protein, it provides a practical means for tuning the characteristics of the cell cycle in vivo.
Submitter of this revision: Lucian Smith
Curator: Lucian Smith
Modeller: Nicolas Le Novère
Metadata information
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is (2 statements)
is1,
isDescribedBy (1 statement)
isDescribedBy1,
hasTaxon (1 statement)
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isVersionOf (1 statement)
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isHomologTo (1 statement)
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hasProperty (1 statement)
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| Name | Description | Size | Actions |
|---|---|---|---|
Model files (1) |
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| BIOMD0000000008_url.xml | SBML L2V4 representation of Gardner1998 - Cell Cycle Goldbeter | 26.59 KB | Preview | Download |
Additional files (15) |
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| BIOMD0000000008-biopax2.owl | Auto-generated BioPAX (Level 2) | 18.05 KB | Preview | Download |
| BIOMD0000000008-biopax3.owl | Auto-generated BioPAX (Level 3) | 26.86 KB | Preview | Download |
| BIOMD0000000008-matlab.m | Auto-generated Matlab file. | 6.82 KB | Preview | Download |
| BIOMD0000000008-octave.m | Auto-generated Octave file. | 6.82 KB | Preview | Download |
| BIOMD0000000008.m | Auto-generated Octave file | 6.11 KB | Preview | Download |
| BIOMD0000000008.pdf | Auto-generated PDF file | 177.38 KB | Preview | Download |
| BIOMD0000000008.png | Auto-generated Reaction graph (PNG) | 44.69 KB | Preview | Download |
| BIOMD0000000008.sci | Auto-generated Scilab file | 3.51 KB | Preview | Download |
| BIOMD0000000008.svg | Auto-generated Reaction graph (SVG) | 31.73 KB | Preview | Download |
| BIOMD0000000008.vcml | Auto-generated VCML file | 35.60 KB | Preview | Download |
| BIOMD0000000008_url.sedml | CRBM auto-generated "template" SED-ML file. | 14.44 KB | Preview | Download |
| curation_image.png | Reproduced figure(s) from original curation. | 10.43 KB | Preview | Download |
| curation_notes.txt | Notes from original curation (describes curation_image). | 111.00 Bytes | Preview | Download |
| manifest.xml | Auto-generated manifest file for OMEX archives. | 1.88 KB | Preview | Download |
| metadata.rdf | Auto-generated annotation metadata file. | 4.94 KB | Preview | Download |
- Model originally submitted by : Nicolas Le Novère
- Submitted: Sep 13, 2005 1:36:20 PM
- Last Modified: Aug 21, 2024 6:27:25 PM
Revisions
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Version: 3
- Submitted on: Aug 21, 2024 6:27:25 PM
- Submitted by: Lucian Smith
- With comment: CRBM-sponsored manual and automated updates.
-
Version: 2
- Submitted on: Jul 24, 2014 11:59:34 AM
- Submitted by: Nicolas Le Novère
- With comment: Current version of Gardner1998 - Cell Cycle Goldbeter
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Version: 1
- Submitted on: Sep 13, 2005 1:36:20 PM
- Submitted by: Nicolas Le Novère
- With comment: Original import of BIOMD0000000008.xml.origin
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: Variable used inside SBML models
| Species | Initial Concentration/Amount |
|---|---|
| X peptidase activity |
0.0 mol |
| Y | 1.0 mol |
| Z IPR006670 |
1.0 mol |
| C IPR006670 |
0.0 mol |
| M Cyclin-dependent kinase 1-A ; Cyclin-dependent kinase 1-B |
0.0 mol |
| Reactions | Rate | Parameters |
|---|---|---|
| X => | V4*X*(K4+X)^-1 | K4=0.1; V4=0.1 |
| Y => | d1*Y | d1=0.05 |
| Z => C | alpha*d1*Z | alpha=0.1; d1=0.05 |
| => C | vi | vi=0.1 |
| => M | (1+-1*M)*V1*(K1+-1*M+1)^-1 | K1=0.1; V1 = NaN |
| C + Y => Z | a1*C*Y | a1=0.05 |
| Z => C + Y | a2*Z | a2=0.05 |
| => Y | vs | vs=0.2 |
| => X | V3*(1+-1*X)*(K3+-1*X+1)^-1 | K3=0.2; V3 = NaN |
| C => | C*kd | kd=0.02 |
(added: 10 Aug 2009, 15:53:31, updated: 10 Aug 2009, 15:53:31)