- Author:
- Shelley Fong <sfon036@UoA.auckland.ac.nz>
- Date:
- 2025-04-28 10:50:08+12:00
- Desc:
- Adding expo files
- Permanent Source URI:
- https://staging.physiomeproject.org/workspace/b2d/rawfile/7ffdffa3746a5082ac7fe40e9eb41ff3ac238444/BG_RTK.cellml
<?xml version='1.0' encoding='UTF-8'?>
<model name="individual_RTK" xmlns="http://www.cellml.org/cellml/1.1#" xmlns:cellml="http://www.cellml.org/cellml/1.1#" xmlns:xlink="http://www.w3.org/1999/xlink">
<import xlink:href="units_and_constants/units_BG.cellml">
<units name="mM" units_ref="mM"/>
<units name="fmol" units_ref="fmol"/>
<units name="per_fmol" units_ref="per_fmol"/>
<units name="J_per_mol" units_ref="J_per_mol"/>
<units name="fmol_per_sec" units_ref="fmol_per_sec"/>
<units name="C_per_mol" units_ref="C_per_mol"/>
<units name="J_per_C" units_ref="J_per_C"/>
<units name="microm3" units_ref="microm3"/>
<units name="fF" units_ref="fF"/>
<units name="fC" units_ref="fC"/>
<units name="fA" units_ref="fA"/>
<units name="per_second" units_ref="per_second"/>
<units name="millivolt" units_ref="millivolt"/>
<units name="per_sec" units_ref="per_sec"/>
<units name="J_per_K_per_mol" units_ref="J_per_K_per_mol"/>
<units name="fmol_per_L" units_ref="fmol_per_L"/>
<units name="fmol_per_L_per_sec" units_ref="fmol_per_L_per_sec"/>
<units name="per_sec_per_fmol_per_L" units_ref="per_sec_per_fmol_per_L"/>
<units name="uM" units_ref="uM"/>
<units name="mM_per_sec" units_ref="mM_per_sec"/>
<units name="uM_per_sec" units_ref="uM_per_sec"/>
<units name="pL" units_ref="pL"/>
<units name="m_to_u" units_ref="m_to_u"/>
</import>
<import xlink:href="units_and_constants/constants_BG.cellml">
<component component_ref="constants" name="constants"/>
</import>
<component name="environment">
<variable name="time" public_interface="out" units="second"/>
<!-- initial values-->
<variable initial_value="1" name="q_L" public_interface="out" units="fmol"/>
<variable initial_value="1e-3" name="q_K1" public_interface="out" units="fmol"/>
<variable initial_value="1e-3" name="q_K2" public_interface="out" units="fmol"/>
<variable initial_value="1e-6" name="q_LK1" public_interface="out" units="fmol"/>
<variable initial_value="1" name="q_P" public_interface="out" units="fmol"/>
<variable initial_value="1e-9" name="q_LK1K2" public_interface="out" units="fmol"/>
<variable initial_value="1e-9" name="q_LK1K2P" public_interface="out" units="fmol"/>
<!-- From submodule-->
<variable name="v_Re1" public_interface="in" units="fmol_per_sec"/>
<variable name="v_Re2" public_interface="in" units="fmol_per_sec"/>
<variable name="v_Re3" public_interface="in" units="fmol_per_sec"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>q_L</ci>
</apply>
<apply>
<minus/>
<ci>v_Re1</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>q_K1</ci>
</apply>
<apply>
<minus/>
<ci>v_Re1</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>q_K2</ci>
</apply>
<apply>
<minus/>
<ci>v_Re2</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>q_LK1</ci>
</apply>
<apply>
<plus/>
<apply>
<minus/>
<ci>v_Re1</ci>
<ci>v_Re2</ci>
</apply>
<ci>v_Re3</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>q_P</ci>
</apply>
<apply>
<minus/>
<ci>v_Re3</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>q_LK1K2</ci>
</apply>
<apply>
<minus/>
<ci>v_Re2</ci>
<ci>v_Re3</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>q_LK1K2P</ci>
</apply>
<ci>v_Re3</ci>
</apply>
</math>
</component>
<component name="RTK_parameters">
<variable initial_value="0.000186898" name="kappa_Re1" public_interface="out" units="fmol_per_sec"/>
<variable initial_value="0.0125535" name="kappa_Re2" public_interface="out" units="fmol_per_sec"/>
<variable initial_value="132.879" name="kappa_Re3" public_interface="out" units="fmol_per_sec"/>
<variable initial_value="21.2637" name="K_L" public_interface="out" units="per_fmol"/>
<variable initial_value="21.2637" name="K_K1" public_interface="out" units="per_fmol"/>
<variable initial_value="4.32794e+08" name="K_K2" public_interface="out" units="per_fmol"/>
<variable initial_value="0.000155538" name="K_LK1" public_interface="out" units="per_fmol"/>
<variable initial_value="2.74631e+06" name="K_P" public_interface="out" units="per_fmol"/>
<variable initial_value="2.31567e-06" name="K_LK1K2" public_interface="out" units="per_fmol"/>
<variable initial_value="4.08874e-08" name="K_LK1K2P" public_interface="out" units="per_fmol"/>
</component>
<component name="RTK">
<variable name="time" public_interface="in" units="second"/>
<variable name="R" public_interface="in" units="J_per_K_per_mol"/>
<variable name="T" public_interface="in" units="kelvin"/>
<!-- parameters-->
<variable name="kappa_Re1" public_interface="in" units="fmol_per_sec"/>
<variable name="kappa_Re2" public_interface="in" units="fmol_per_sec"/>
<variable name="kappa_Re3" public_interface="in" units="fmol_per_sec"/>
<variable name="K_L" public_interface="in" units="per_fmol"/>
<variable name="K_K1" public_interface="in" units="per_fmol"/>
<variable name="K_K2" public_interface="in" units="per_fmol"/>
<variable name="K_LK1" public_interface="in" units="per_fmol"/>
<variable name="K_P" public_interface="in" units="per_fmol"/>
<variable name="K_LK1K2" public_interface="in" units="per_fmol"/>
<variable name="K_LK1K2P" public_interface="in" units="per_fmol"/>
<!-- Input from global environment-->
<variable name="q_L" public_interface="in" units="fmol"/>
<variable name="q_K1" public_interface="in" units="fmol"/>
<variable name="q_K2" public_interface="in" units="fmol"/>
<variable name="q_LK1" public_interface="in" units="fmol"/>
<variable name="q_P" public_interface="in" units="fmol"/>
<variable name="q_LK1K2" public_interface="in" units="fmol"/>
<variable name="q_LK1K2P" public_interface="in" units="fmol"/>
<!-- Constitutive parameters-->
<variable name="mu_L" units="J_per_mol"/>
<variable name="mu_K1" units="J_per_mol"/>
<variable name="mu_K2" units="J_per_mol"/>
<variable name="mu_LK1" units="J_per_mol"/>
<variable name="mu_P" units="J_per_mol"/>
<variable name="mu_LK1K2" units="J_per_mol"/>
<variable name="mu_LK1K2P" units="J_per_mol"/>
<variable name="v_Re1" public_interface="out" units="fmol_per_sec"/>
<variable name="v_Re2" public_interface="out" units="fmol_per_sec"/>
<variable name="v_Re3" public_interface="out" units="fmol_per_sec"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>mu_L</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_L</ci>
<ci>q_L</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>mu_K1</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_K1</ci>
<ci>q_K1</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>mu_K2</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_K2</ci>
<ci>q_K2</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>mu_LK1</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_LK1</ci>
<ci>q_LK1</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>mu_LK1K2P</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_LK1K2P</ci>
<ci>q_LK1K2P</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>mu_P</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_P</ci>
<ci>q_P</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>mu_LK1K2</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_LK1K2</ci>
<ci>q_LK1K2</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>v_Re1</ci>
<apply>
<times/>
<ci>kappa_Re1</ci>
<apply>
<minus/>
<apply>
<exp/>
<apply>
<divide/>
<apply>
<plus/>
<ci>mu_L</ci>
<ci>mu_K1</ci>
</apply>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
</apply>
</apply>
</apply>
<apply>
<exp/>
<apply>
<divide/>
<ci>mu_LK1</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>v_Re2</ci>
<apply>
<times/>
<ci>kappa_Re2</ci>
<apply>
<minus/>
<apply>
<exp/>
<apply>
<divide/>
<apply>
<plus/>
<ci>mu_LK1</ci>
<ci>mu_K2</ci>
</apply>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
</apply>
</apply>
</apply>
<apply>
<exp/>
<apply>
<divide/>
<ci>mu_LK1K2</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>v_Re3</ci>
<apply>
<times/>
<ci>kappa_Re3</ci>
<apply>
<minus/>
<apply>
<exp/>
<apply>
<divide/>
<apply>
<plus/>
<ci>mu_P</ci>
<ci>mu_LK1K2</ci>
</apply>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
</apply>
</apply>
</apply>
<apply>
<exp/>
<apply>
<divide/>
<apply>
<plus/>
<ci>mu_LK1</ci>
<ci>mu_LK1K2P</ci>
</apply>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<connection>
<map_components component_1="environment" component_2="RTK"/>
<map_variables variable_1="time" variable_2="time"/>
<map_variables variable_1="q_L" variable_2="q_L"/>
<map_variables variable_1="q_K1" variable_2="q_K1"/>
<map_variables variable_1="q_K2" variable_2="q_K2"/>
<map_variables variable_1="q_LK1" variable_2="q_LK1"/>
<map_variables variable_1="q_P" variable_2="q_P"/>
<map_variables variable_1="q_LK1K2" variable_2="q_LK1K2"/>
<map_variables variable_1="q_LK1K2P" variable_2="q_LK1K2P"/>
<map_variables variable_1="v_Re1" variable_2="v_Re1"/>
<map_variables variable_1="v_Re2" variable_2="v_Re2"/>
<map_variables variable_1="v_Re3" variable_2="v_Re3"/>
</connection>
<connection>
<map_components component_1="RTK" component_2="RTK_parameters"/>
<map_variables variable_1="kappa_Re1" variable_2="kappa_Re1"/>
<map_variables variable_1="kappa_Re2" variable_2="kappa_Re2"/>
<map_variables variable_1="kappa_Re3" variable_2="kappa_Re3"/>
<map_variables variable_1="K_L" variable_2="K_L"/>
<map_variables variable_1="K_K1" variable_2="K_K1"/>
<map_variables variable_1="K_K2" variable_2="K_K2"/>
<map_variables variable_1="K_LK1" variable_2="K_LK1"/>
<map_variables variable_1="K_P" variable_2="K_P"/>
<map_variables variable_1="K_LK1K2" variable_2="K_LK1K2"/>
<map_variables variable_1="K_LK1K2P" variable_2="K_LK1K2P"/>
</connection>
<connection>
<map_components component_1="constants" component_2="RTK"/>
<map_variables variable_1="R" variable_2="R"/>
<map_variables variable_1="T" variable_2="T"/>
</connection>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:about="#model">
<bqs:reference xmlns:bqs="http://www.cellml.org/bqs/1.0#" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<dc:subject xmlns:dc="http://purl.org/dc/elements/1.1/" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<bqs:subject_type xmlns:bqs="http://www.cellml.org/bqs/1.0#">keyword</bqs:subject_type>
<rdf:value xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Bag xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:li xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">protein-modules</rdf:li>
</rdf:Bag>
</rdf:value>
</dc:subject>
</bqs:reference>
</rdf:Description>
</rdf:RDF>
</model>
