Location: Notch signaling pathway @ eb1590e7cc67 / Notch_1_Wang.cellml

Author:
Nazanin Ebrahimi <nebr002@aucklanduni.ac.nz>
Date:
2014-10-13 15:48:02+13:00
Desc:
Notch model from Wang et al. paper is added
Permanent Source URI:
http://models.cellml.org/workspace/1cd/rawfile/eb1590e7cc67963d30742270f6382b000c720a33/Notch_1_Wang.cellml

<?xml version="1.0" encoding="utf-8"?>
<!--
This CellML file was generated on 25-Oct-13 at 4:30:43 at PM using:

COR (0.9.31.1409)
Copyright 2002-2013 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/
-->
<model name="Notch1" cmeta:id="Notch1" xmlns="http://www.cellml.org/cellml/1.0#" xmlns:cellml="http://www.cellml.org/cellml/1.0#" xmlns:cmeta="http://www.cellml.org/metadata/1.0#">
   <units name="nM">
      <unit units="mole" prefix="nano"/>
      <unit units="liter" exponent="-1"/>
   </units>
   <units name="min">
      <unit units="second" multiplier="60"/>
   </units>
   <units name="per_min">
      <unit units="min" exponent="-1"/>
   </units>
   <units name="nM_per_min">
      <unit units="nM"/>
      <unit units="min" exponent="-1"/>
   </units>
   <units name="per_nM_per_min">
      <unit units="nM" exponent="-1"/>
      <unit units="min" exponent="-1"/>
   </units>
   <component name="wholecell">
      <variable name="t" units="min"/>
      <variable name="Dll1" units="nM" initial_value="1.71"/>
      <variable name="V_sDll1" units="nM_per_min" initial_value="0.2"/>
      <variable name="V_MdDll1" units="nM_per_min" initial_value="0.385"/>
      <variable name="K_dDll1" units="nM" initial_value="1.584"/>
      <variable name="Notch" units="nM" initial_value="0.12"/>
      <variable name="V_sNotch" units="nM_per_min" initial_value="0.069"/>
      <variable name="K_c" units="per_min" initial_value="1.035"/>
      <variable name="K_Dll1" units="nM" initial_value="1"/>
      <variable name="K_ILfng" units="nM" initial_value="0.15"/>
      <variable name="n" units="dimensionless" initial_value="2"/>
      <variable name="Lfng" units="nM" initial_value="2.72"/>
      <variable name="V_MdNotch" units="nM_per_min" initial_value="0.846"/>
      <variable name="K_dNotch" units="nM" initial_value="1.4"/>
      <variable name="NICD_c" units="nM" initial_value="0"/>
      <variable name="EX_NICD_n" units="per_min" initial_value="0.03"/>
      <variable name="NICD_n" units="nM" initial_value="0.009"/>
      <variable name="IM_NICD_c" units="per_min" initial_value="0.03"/>
      <variable name="V_MdNICD_c" units="nM_per_min" initial_value="0.01"/>
      <variable name="K_dNICD_c" units="nM" initial_value="0.001"/>
      <variable name="K_mLfng" units="per_min" initial_value="0.09"/>
      <variable name="EX_mLfng_n" units="per_min" initial_value="0.5"/>
      <variable name="mLfng_c" units="nM" initial_value="0.043"/>
      <variable name="V_MdLfng" units="nM_per_min" initial_value="0.117"/>
      <variable name="K_dLfng" units="nM" initial_value="0.37"/>
      <variable name="V_MdmLfng_c" units="nM_per_min" initial_value="0.7"/>
      <variable name="K_dmLfng_c" units="nM" initial_value="0.768"/>
      <variable name="Hes7_c" units="nM" initial_value="10.66"/>
      <variable name="K_mHes7" units="per_min" initial_value="0.05"/>
      <variable name="mHes7_c" units="nM" initial_value="0.042"/>
      <variable name="EX_Hes7_n" units="per_min" initial_value="0.01"/>
      <variable name="Hes7_n" units="nM" initial_value="1.24"/>
      <variable name="IM_Hes7_c" units="per_min" initial_value="0.01"/>
      <variable name="V_MdHes7_c" units="nM_per_min" initial_value="0.1"/>
      <variable name="K_dHes7_c" units="nM" initial_value="0.1"/>
      <variable name="EX_mHes7_n" units="per_min" initial_value="1.5"/>
      <variable name="mHes7_n" units="nM" initial_value="0.013"/>
      <variable name="V_MdmHes7_c" units="nM_per_min" initial_value="0.635"/>
      <variable name="K_dmHes7_c" units="nM" initial_value="1"/>
      <variable name="d_NR" units="per_min" initial_value="1"/>
      <variable name="NR" units="nM" initial_value="0.026"/>
      <variable name="a_NR" units="per_nM_per_min" initial_value="8"/>
      <variable name="RBPj" units="nM"/>
      <variable name="V_MdNICD_n" units="nM_per_min" initial_value="0.003"/>
      <variable name="K_dNICD_n" units="nM" initial_value="0.001"/>
      <variable name="V_MdHes7_n" units="nM_per_min" initial_value="0.1"/>
      <variable name="K_dHes7_n" units="nM" initial_value="0.1"/>
      <variable name="mLfng_n" units="nM" initial_value="0.073"/>
      <variable name="V_mLfng" units="nM_per_min" initial_value="0.03"/>
      <variable name="V_MsmLfng" units="nM_per_min" initial_value="0.9"/>
      <variable name="K_smLfng" units="nM" initial_value="0.05"/>
      <variable name="h1" units="dimensionless" initial_value="2"/>
      <variable name="K_HIL" units="nM" initial_value="0.2"/>
      <variable name="h_HIL" units="dimensionless" initial_value="2"/>
      <variable name="V_mHes7" units="nM_per_min" initial_value="0.01"/>
      <variable name="V_MsmHes7" units="nM_per_min" initial_value="1.24"/>
      <variable name="K_smHes7" units="nM" initial_value="0.041"/>
      <variable name="h2" units="dimensionless" initial_value="2"/>
      <variable name="K_HIH" units="nM" initial_value="0.2"/>
      <variable name="h_HIH" units="dimensionless" initial_value="2"/>
      <variable name="RBPj_t" units="nM" initial_value="0.35"/>
      <math xmlns="http://www.w3.org/1998/Math/MathML">
         <apply>
            <eq/>
            <ci>RBPj</ci>
            <apply>
               <minus/>
               <ci>RBPj_t</ci>
               <ci>NR</ci>
            </apply>
         </apply>
         <apply>
            <eq/>
            <apply>
               <diff/>
               <bvar>
                  <ci>t</ci>
               </bvar>
               <ci>Dll1</ci>
            </apply>
            <apply>
               <minus/>
               <ci>V_sDll1</ci>
               <apply>
                  <times/>
                  <ci>V_MdDll1</ci>
                  <apply>
                     <divide/>
                     <ci>Dll1</ci>
                     <apply>
                        <plus/>
                        <ci>K_dDll1</ci>
                        <ci>Dll1</ci>
                     </apply>
                  </apply>
               </apply>
            </apply>
         </apply>
         <apply>
            <eq/>
            <apply>
               <diff/>
               <bvar>
                  <ci>t</ci>
               </bvar>
               <ci>Notch</ci>
            </apply>
            <apply>
               <minus/>
               <apply>
                  <minus/>
                  <ci>V_sNotch</ci>
                  <apply>
                     <divide/>
                     <apply>
                        <times/>
                        <apply>
                           <divide/>
                           <apply>
                              <times/>
                              <ci>K_c</ci>
                              <ci>Notch</ci>
                              <ci>Dll1</ci>
                           </apply>
                           <apply>
                              <plus/>
                              <ci>K_Dll1</ci>
                              <ci>Dll1</ci>
                           </apply>
                        </apply>
                        <apply>
                           <power/>
                           <ci>K_ILfng</ci>
                           <ci>n</ci>
                        </apply>
                     </apply>
                     <apply>
                        <plus/>
                        <apply>
                           <power/>
                           <ci>K_ILfng</ci>
                           <ci>n</ci>
                        </apply>
                        <apply>
                           <power/>
                           <ci>Lfng</ci>
                           <ci>n</ci>
                        </apply>
                     </apply>
                  </apply>
               </apply>
               <apply>
                  <divide/>
                  <apply>
                     <times/>
                     <ci>V_MdNotch</ci>
                     <ci>Notch</ci>
                  </apply>
                  <apply>
                     <plus/>
                     <ci>K_dNotch</ci>
                     <ci>Notch</ci>
                  </apply>
               </apply>
            </apply>
         </apply>
         <apply>
            <eq/>
            <apply>
               <diff/>
               <bvar>
                  <ci>t</ci>
               </bvar>
               <ci>NICD_c</ci>
            </apply>
            <apply>
               <minus/>
               <apply>
                  <minus/>
                  <apply>
                     <plus/>
                     <apply>
                        <divide/>
                        <apply>
                           <times/>
                           <apply>
                              <divide/>
                              <apply>
                                 <times/>
                                 <ci>K_c</ci>
                                 <ci>Notch</ci>
                                 <ci>Dll1</ci>
                              </apply>
                              <apply>
                                 <plus/>
                                 <ci>K_Dll1</ci>
                                 <ci>Dll1</ci>
                              </apply>
                           </apply>
                           <apply>
                              <power/>
                              <ci>K_ILfng</ci>
                              <ci>n</ci>
                           </apply>
                        </apply>
                        <apply>
                           <plus/>
                           <apply>
                              <power/>
                              <ci>K_ILfng</ci>
                              <ci>n</ci>
                           </apply>
                           <apply>
                              <power/>
                              <ci>Lfng</ci>
                              <ci>n</ci>
                           </apply>
                        </apply>
                     </apply>
                     <apply>
                        <times/>
                        <ci>EX_NICD_n</ci>
                        <ci>NICD_n</ci>
                     </apply>
                  </apply>
                  <apply>
                     <times/>
                     <ci>IM_NICD_c</ci>
                     <ci>NICD_c</ci>
                  </apply>
               </apply>
               <apply>
                  <divide/>
                  <apply>
                     <times/>
                     <ci>V_MdNICD_c</ci>
                     <ci>NICD_c</ci>
                  </apply>
                  <apply>
                     <plus/>
                     <ci>K_dNICD_c</ci>
                     <ci>NICD_c</ci>
                  </apply>
               </apply>
            </apply>
         </apply>
         <apply>
            <eq/>
            <apply>
               <diff/>
               <bvar>
                  <ci>t</ci>
               </bvar>
               <ci>Lfng</ci>
            </apply>
            <apply>
               <minus/>
               <apply>
                  <times/>
                  <ci>K_mLfng</ci>
                  <ci>mLfng_c</ci>
               </apply>
               <apply>
                  <divide/>
                  <apply>
                     <times/>
                     <ci>V_MdLfng</ci>
                     <ci>Lfng</ci>
                  </apply>
                  <apply>
                     <plus/>
                     <ci>K_dLfng</ci>
                     <ci>Lfng</ci>
                  </apply>
               </apply>
            </apply>
         </apply>
         <apply>
            <eq/>
            <apply>
               <diff/>
               <bvar>
                  <ci>t</ci>
               </bvar>
               <ci>mLfng_c</ci>
            </apply>
            <apply>
               <minus/>
               <apply>
                  <times/>
                  <ci>EX_mLfng_n</ci>
                  <ci>mLfng_n</ci>
               </apply>
               <apply>
                  <divide/>
                  <apply>
                     <times/>
                     <ci>V_MdmLfng_c</ci>
                     <ci>mLfng_c</ci>
                  </apply>
                  <apply>
                     <plus/>
                     <ci>K_dmLfng_c</ci>
                     <ci>mLfng_c</ci>
                  </apply>
               </apply>
            </apply>
         </apply>
         <apply>
            <eq/>
            <apply>
               <diff/>
               <bvar>
                  <ci>t</ci>
               </bvar>
               <ci>Hes7_c</ci>
            </apply>
            <apply>
               <minus/>
               <apply>
                  <minus/>
                  <apply>
                     <plus/>
                     <apply>
                        <times/>
                        <ci>K_mHes7</ci>
                        <ci>mHes7_c</ci>
                     </apply>
                     <apply>
                        <times/>
                        <ci>EX_Hes7_n</ci>
                        <ci>Hes7_n</ci>
                     </apply>
                  </apply>
                  <apply>
                     <times/>
                     <ci>IM_Hes7_c</ci>
                     <ci>Hes7_c</ci>
                  </apply>
               </apply>
               <apply>
                  <divide/>
                  <apply>
                     <times/>
                     <ci>V_MdHes7_c</ci>
                     <ci>Hes7_c</ci>
                  </apply>
                  <apply>
                     <plus/>
                     <ci>K_dHes7_c</ci>
                     <ci>Hes7_c</ci>
                  </apply>
               </apply>
            </apply>
         </apply>
         <apply>
            <eq/>
            <apply>
               <diff/>
               <bvar>
                  <ci>t</ci>
               </bvar>
               <ci>mHes7_c</ci>
            </apply>
            <apply>
               <minus/>
               <apply>
                  <times/>
                  <ci>EX_mHes7_n</ci>
                  <ci>mHes7_n</ci>
               </apply>
               <apply>
                  <divide/>
                  <apply>
                     <times/>
                     <ci>V_MdmHes7_c</ci>
                     <ci>mHes7_c</ci>
                  </apply>
                  <apply>
                     <plus/>
                     <ci>K_dmHes7_c</ci>
                     <ci>mHes7_c</ci>
                  </apply>
               </apply>
            </apply>
         </apply>
         <apply>
            <eq/>
            <apply>
               <diff/>
               <bvar>
                  <ci>t</ci>
               </bvar>
               <ci>NICD_n</ci>
            </apply>
            <apply>
               <minus/>
               <apply>
                  <minus/>
                  <apply>
                     <minus/>
                     <apply>
                        <plus/>
                        <apply>
                           <times/>
                           <ci>IM_NICD_c</ci>
                           <ci>NICD_c</ci>
                        </apply>
                        <apply>
                           <times/>
                           <ci>d_NR</ci>
                           <ci>NR</ci>
                        </apply>
                     </apply>
                     <apply>
                        <times/>
                        <ci>EX_NICD_n</ci>
                        <ci>NICD_n</ci>
                     </apply>
                  </apply>
                  <apply>
                     <times/>
                     <ci>a_NR</ci>
                     <ci>NICD_n</ci>
                     <ci>RBPj</ci>
                  </apply>
               </apply>
               <apply>
                  <divide/>
                  <apply>
                     <times/>
                     <ci>V_MdNICD_n</ci>
                     <ci>NICD_n</ci>
                  </apply>
                  <apply>
                     <plus/>
                     <ci>K_dNICD_n</ci>
                     <ci>NICD_n</ci>
                  </apply>
               </apply>
            </apply>
         </apply>
         <apply>
            <eq/>
            <apply>
               <diff/>
               <bvar>
                  <ci>t</ci>
               </bvar>
               <ci>NR</ci>
            </apply>
            <apply>
               <minus/>
               <apply>
                  <times/>
                  <ci>a_NR</ci>
                  <ci>NICD_n</ci>
                  <ci>RBPj</ci>
               </apply>
               <apply>
                  <times/>
                  <ci>d_NR</ci>
                  <ci>NR</ci>
               </apply>
            </apply>
         </apply>
         <apply>
            <eq/>
            <apply>
               <diff/>
               <bvar>
                  <ci>t</ci>
               </bvar>
               <ci>Hes7_n</ci>
            </apply>
            <apply>
               <minus/>
               <apply>
                  <minus/>
                  <apply>
                     <times/>
                     <ci>IM_Hes7_c</ci>
                     <ci>Hes7_c</ci>
                  </apply>
                  <apply>
                     <times/>
                     <ci>EX_Hes7_n</ci>
                     <ci>Hes7_n</ci>
                  </apply>
               </apply>
               <apply>
                  <divide/>
                  <apply>
                     <times/>
                     <ci>V_MdHes7_n</ci>
                     <ci>Hes7_n</ci>
                  </apply>
                  <apply>
                     <plus/>
                     <ci>K_dHes7_n</ci>
                     <ci>Hes7_n</ci>
                  </apply>
               </apply>
            </apply>
         </apply>
         <apply>
            <eq/>
            <apply>
               <diff/>
               <bvar>
                  <ci>t</ci>
               </bvar>
               <ci>mLfng_n</ci>
            </apply>
            <apply>
               <minus/>
               <apply>
                  <plus/>
                  <ci>V_mLfng</ci>
                  <apply>
                     <divide/>
                     <apply>
                        <times/>
                        <apply>
                           <divide/>
                           <apply>
                              <times/>
                              <ci>V_MsmLfng</ci>
                              <apply>
                                 <power/>
                                 <ci>NR</ci>
                                 <ci>h1</ci>
                              </apply>
                           </apply>
                           <apply>
                              <plus/>
                              <apply>
                                 <power/>
                                 <ci>K_smLfng</ci>
                                 <ci>h1</ci>
                              </apply>
                              <apply>
                                 <power/>
                                 <ci>NR</ci>
                                 <ci>h1</ci>
                              </apply>
                           </apply>
                        </apply>
                        <apply>
                           <power/>
                           <ci>K_HIL</ci>
                           <ci>h_HIL</ci>
                        </apply>
                     </apply>
                     <apply>
                        <plus/>
                        <apply>
                           <power/>
                           <ci>K_HIL</ci>
                           <ci>h_HIL</ci>
                        </apply>
                        <apply>
                           <power/>
                           <ci>Hes7_n</ci>
                           <ci>h_HIL</ci>
                        </apply>
                     </apply>
                  </apply>
               </apply>
               <apply>
                  <times/>
                  <ci>EX_mLfng_n</ci>
                  <ci>mLfng_n</ci>
               </apply>
            </apply>
         </apply>
         <apply>
            <eq/>
            <apply>
               <diff/>
               <bvar>
                  <ci>t</ci>
               </bvar>
               <ci>mHes7_n</ci>
            </apply>
            <apply>
               <minus/>
               <apply>
                  <plus/>
                  <ci>V_mHes7</ci>
                  <apply>
                     <divide/>
                     <apply>
                        <times/>
                        <apply>
                           <divide/>
                           <apply>
                              <times/>
                              <ci>V_MsmHes7</ci>
                              <apply>
                                 <power/>
                                 <ci>NR</ci>
                                 <ci>h2</ci>
                              </apply>
                           </apply>
                           <apply>
                              <plus/>
                              <apply>
                                 <power/>
                                 <ci>K_smHes7</ci>
                                 <ci>h2</ci>
                              </apply>
                              <apply>
                                 <power/>
                                 <ci>NR</ci>
                                 <ci>h2</ci>
                              </apply>
                           </apply>
                        </apply>
                        <apply>
                           <power/>
                           <ci>K_HIH</ci>
                           <ci>h_HIH</ci>
                        </apply>
                     </apply>
                     <apply>
                        <plus/>
                        <apply>
                           <power/>
                           <ci>K_HIH</ci>
                           <ci>h_HIH</ci>
                        </apply>
                        <apply>
                           <power/>
                           <ci>Hes7_n</ci>
                           <ci>h_HIH</ci>
                        </apply>
                     </apply>
                  </apply>
               </apply>
               <apply>
                  <times/>
                  <ci>EX_mHes7_n</ci>
                  <ci>mHes7_n</ci>
               </apply>
            </apply>
         </apply>
      </math>
   </component>
</model>