- Author:
- amyyou2005 <devnull@localhost>
- Date:
- 2010-11-23 09:37:09+13:00
- Desc:
- Adding to the repository for the 1st time
- Permanent Source URI:
- https://models.physiomeproject.org/workspace/swat_kel_herzel_2004/rawfile/97ca23a7b8a27e4ad15c7f013308b1431ec5eac4/swat_2004.cellml
<?xml version="1.0" encoding="utf-8"?>
<!--
This CellML file was generated on 11/22/2010 at 4:16:58 at PM using:
COR (0.9.31.1409)
Copyright 2002-2010 Dr Alan Garny
http://cor.physiol.ox.ac.uk/ - cor@physiol.ox.ac.uk
CellML 1.0 was used to generate this model
http://www.cellml.org/
-->
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<title>Bifurcation analysis of the regulatory modules of the mammalian G1/S transition</title>
<author>
<firstname>Amy</firstname>
<surname>You</surname>
<affiliation>
<shortaffil>Auckland Bioengineering Institute, University of Auckland</shortaffil>
</affiliation>
</author>
</articleinfo>
<section id="sec_status">
<title>Model Status</title>
<para>This model has been built with the differential expressions in Swat's 2004 paper for the G1/S transition of the mammalian cell cycle under the influence of growth factors. The paramters (pRB,E2F1,AP_1,CycE/CycD) in this model are core proteins responsible for progression from the G1 phase to the S-phase of the cell cycle. Other parameters are chosen to reflect the experimentally known features. The values used for this particular model were taken from Figure 3 and 4 on page 1509 and reproduces the corresponding curves. This file is known to run in OpenCell and COR.</para>
</section>
<sect1 id="sec_structure">
<title>Model Structure</title>
<para>Mathematical models of the cell cycle can contribute to an understanding of its basic mechanisms. Modern simulation tools make the analysis of key components and their interactions very effective. This paper focuses on the role of small modules and feedbacks in the gene-protein network governing the G1/S transition in mammalian cells. Mutations in this network may lead to uncontrolled cell proliferation. Bifurcation analysis helps to identify the key components of this extremely complex interaction network. </para>
<para>
Bifurcation analysis of the regulatory modules of the mammalian G1/S transition, Swat M, Kel A, Herzel H, 2004, <emphasis>bioinformatics</emphasis>
, 20, 1506-1511 <ulink url="http://www.ncbi.nlm.nih.gov/pubmed/15231543">PubMed ID: 15231543</ulink>
</para>
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<caption>Transition from the G0-phase to the S-phase under the influence of growth factors. The phase-dependent phosphorylation of pRB is carried out successively by the complexes of cyclins D, E and cyclin-dependent kinases cdk4, 6 resp. cdk2. </caption>
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</connection>
<connection>
<map_components component_1="first_extension" component_2="Second_extension"/>
<map_variables variable_1="CycE_a" variable_2="CycE_a"/>
<map_variables variable_1="pRB_pp" variable_2="pRB_pp"/>
<map_variables variable_1="k_67" variable_2="k_67"/>
<map_variables variable_1="k_76" variable_2="k_76"/>
<map_variables variable_1="pRB_p" variable_2="pRB_p"/>
</connection>
<connection>
<map_components component_1="Core_Module" component_2="Second_extension"/>
<map_variables variable_1="pRB" variable_2="pRB"/>
<map_variables variable_1="E2F1" variable_2="E2F1"/>
</connection>
</model>
