Tyson1991 - Cell Cycle 2 var
Mathematical model of the interactions of cdc2 and cyclin.
Description taken from the original Cellerator version of the model ( Tyson (1991, 2 variables) at http://www.cellerator.org ).
This model is described in the article:
Abstract:
The proteins cdc2 and cyclin form a heterodimer (maturation promoting factor) that controls the major events of the cell cycle. A mathematical model for the interactions of cdc2 and cyclin is constructed. Simulation and analysis of the model show that the control system can operate in three modes: as a steady state with high maturation promoting factor activity, as a spontaneous oscillator, or as an excitable switch. We associate the steady state with metaphase arrest in unfertilized eggs, the spontaneous oscillations with rapid division cycles in early embryos, and the excitable switch with growth-controlled division cycles typical of nonembryonic cells.
This is a two variable reduction of the larger 6-variable model published in the same paper. The equations are:
u'= k4(v-u)(alpha+u^2)-k6*u
v'=kappa-k6*u
z= v-u
with kappa = k1[aa]/[CT]
In the present implementation, an additional variable z is introduced with z = v-u is made, so that the different variables be interpreted as follows:
u=[activeMPF]/[CT]
v=([cyclin]+[preMPF]+[activeMPF])/[CT]
z=([ cyclin]+[preMPF])/[CT]
with [CT]=[CDC2]+{CDC2P]+[preMPF]+[aMPF].
The reactions included are only to show the flows between z and u, and do not influence the species, as they all are set to boundaryCondition=True , meaning, that they are only determined by the rate rules (explicit differential equations) and assignment rules.
If you set boundaryCondition=False and remove the rate rules for v, u and the the assignment rule for z, you get the more symmetrical, but equivalent, version from the Cellerator repository:
u'= k4*z*(alpha+u^2)-k6*u
z'=kappa-z*(alpha+u^2)
This model is hosted on BioModels Database and identified by: BIOMD0000000006 .
To cite BioModels Database, please use: BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models .
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.
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Modeling the cell division cycle: cdc2 and cyclin interactions.
- Tyson JJ
- Proceedings of the National Academy of Sciences of the United States of America , 8/ 1991 , Volume 88 , pages: 7328-7332 , PubMed ID: 1831270
- Department of Biology, Virginia Polytechnic Institute and State University, Blacksburg 24061.
- The proteins cdc2 and cyclin form a heterodimer (maturation promoting factor) that controls the major events of the cell cycle. A mathematical model for the interactions of cdc2 and cyclin is constructed. Simulation and analysis of the model show that the control system can operate in three modes: as a steady state with high maturation promoting factor activity, as a spontaneous oscillator, or as an excitable switch. We associate the steady state with metaphase arrest in unfertilized eggs, the spontaneous oscillations with rapid division cycles in early embryos, and the excitable switch with growth-controlled division cycles typical of nonembryonic cells.
Submitter of this revision: Nicolas Le Novère
Modellers: Nicolas Le Novère
Metadata information
BioModels Database BIOMD0000000006
KEGG Pathway Cell cycle - yeast - Saccharomyces cerevisiae (budding yeast)
Connected external resources
SBGN view in Newt Editor
| Name | Description | Size | Actions |
|---|---|---|---|
Model files |
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| BIOMD0000000006_url.xml | SBML L2V4 representation of Tyson1991 - Cell Cycle 2 var | 15.10 KB | Preview | Download |
Additional files |
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| BIOMD0000000006-biopax2.owl | Auto-generated BioPAX (Level 2) | 8.27 KB | Preview | Download |
| BIOMD0000000006-biopax3.owl | Auto-generated BioPAX (Level 3) | 11.00 KB | Preview | Download |
| BIOMD0000000006.m | Auto-generated Octave file | 3.45 KB | Preview | Download |
| BIOMD0000000006.pdf | Auto-generated PDF file | 153.66 KB | Preview | Download |
| BIOMD0000000006.png | Auto-generated Reaction graph (PNG) | 4.90 KB | Preview | Download |
| BIOMD0000000006.sci | Auto-generated Scilab file | 1.04 KB | Preview | Download |
| BIOMD0000000006.svg | Auto-generated Reaction graph (SVG) | 9.38 KB | Preview | Download |
| BIOMD0000000006.vcml | Auto-generated VCML file | 900.00 Bytes | Preview | Download |
| BIOMD0000000006.xpp | Auto-generated XPP file | 1.65 KB | Preview | Download |
| BIOMD0000000006_manual.png | Manually generated Reaction graph (PNG) | 4.90 KB | Preview | Download |
| BIOMD0000000006_manual.svg | Manually generated Reaction graph (SVG) | 9.38 KB | Preview | Download |
| BIOMD0000000006_urn.xml | Auto-generated SBML file with URNs | 15.14 KB | Preview | Download |
- Model originally submitted by : Nicolas Le Novère
- Submitted: Sep 13, 2005 1:32:12 PM
- Last Modified: May 16, 2013 3:38:56 PM
Revisions
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Version: 2
- Submitted on: May 16, 2013 3:38:56 PM
- Submitted by: Nicolas Le Novère
- With comment: Current version of Tyson1991 - Cell Cycle 2 var
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Version: 1
- Submitted on: Sep 13, 2005 1:32:12 PM
- Submitted by: Nicolas Le Novère
- With comment: Original import of Tyson1991_CellCycle_2var
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: Variable used inside SBML models
| Species | Initial Concentration/Amount |
|---|---|
| z Cyclin-dependent kinase 1 |
0.0 mol |
| u cyclin-dependent protein serine/threonine kinase activity ; MPF complex |
0.0 mol |
| v Cyclin-dependent kinase 1 ; MPF complex ; cyclin-dependent protein serine/threonine kinase activity |
0.0 mol |
| Reactions | Rate | Parameters |
|---|---|---|
| z = v-u | [] | [] |
| u => EmptySet | k6*u | k6 = 1.0 |
| z => u | k4*z*(k4prime/k4+u^2) | k4 = 180.0; k4prime = 0.018 |
| v = kappa-k6*u | kappa-k6*u | kappa = 0.015; k6 = 1.0 |
| EmptySet => z | kappa | kappa = 0.015 |
| u = k4*(v-u)*(alpha+u^2)-k6*u | k4*(v-u)*(alpha+u^2)-k6*u | k4 = 180.0; alpha = NaN; k6 = 1.0 |
(added: 08 Apr 2011, 02:56:21, updated: 08 Apr 2011, 02:56:21)