- Author:
- Shelley Fong <sfon036@UoA.auckland.ac.nz>
- Date:
- 2025-04-15 11:13:46+12:00
- Desc:
- Adding expo files and rdf
- Permanent Source URI:
- https://staging.physiomeproject.org/workspace/6f7/rawfile/ce94ad023ee2d8360e16a68feafcb344fe8a9717/BG_LRGbinding_B1AR.cellml
<?xml version='1.0' encoding='UTF-8'?>
<model name="individual_LRGbinding_B1AR" 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 name="q_L_B1_init" units="fmol"/>
<variable initial_value="0.0004579000" name="q_R_B1_init" units="fmol"/>
<variable initial_value="0.1455400000" name="q_Gs_init" units="fmol"/>
<variable initial_value="0" name="q_LR_B1_init" units="fmol"/>
<variable initial_value="0" name="q_R_B1Gs_init" units="fmol"/>
<variable initial_value="0" name="q_LR_B1Gs_init" units="fmol"/>
<!-- stimulus-->
<variable initial_value="3.1" name="stimSt" units="second"/>
<variable initial_value="0.5e1" name="stimDur" units="second"/>
<variable initial_value="0.3e1" name="tR" units="second"/>
<variable initial_value="1e-7" name="stimMag" units="fmol"/>
<variable initial_value="1e-8" name="stimHolding" units="fmol"/>
<variable name="m" units="fmol_per_sec"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>m</ci>
<apply>
<divide/>
<ci>stimMag</ci>
<ci>tR</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>q_L_B1_init</ci>
<piecewise>
<piece>
<apply>
<plus/>
<ci>stimHolding</ci>
<apply>
<times/>
<ci>m</ci>
<apply>
<plus/>
<apply>
<minus/>
<ci>time</ci>
<ci>stimSt</ci>
</apply>
<ci>tR</ci>
</apply>
</apply>
</apply>
<apply>
<and/>
<apply>
<lt/>
<ci>time</ci>
<ci>stimSt</ci>
</apply>
<apply>
<gt/>
<ci>time</ci>
<apply>
<minus/>
<ci>stimSt</ci>
<ci>tR</ci>
</apply>
</apply>
</apply>
</piece>
<piece>
<apply>
<plus/>
<ci>stimMag</ci>
<ci>stimHolding</ci>
</apply>
<apply>
<and/>
<apply>
<geq/>
<ci>time</ci>
<ci>stimSt</ci>
</apply>
<apply>
<lt/>
<ci>time</ci>
<apply>
<plus/>
<ci>stimSt</ci>
<ci>stimDur</ci>
</apply>
</apply>
</apply>
</piece>
<piece>
<apply>
<plus/>
<ci>stimHolding</ci>
<apply>
<times/>
<apply>
<minus/>
<ci>m</ci>
</apply>
<apply>
<minus/>
<apply>
<minus/>
<apply>
<minus/>
<ci>time</ci>
<ci>stimSt</ci>
</apply>
<ci>tR</ci>
</apply>
<ci>stimDur</ci>
</apply>
</apply>
</apply>
<apply>
<and/>
<apply>
<lt/>
<ci>time</ci>
<apply>
<plus/>
<ci>stimSt</ci>
<ci>tR</ci>
<ci>stimDur</ci>
</apply>
</apply>
<apply>
<geq/>
<ci>time</ci>
<apply>
<plus/>
<ci>stimSt</ci>
<ci>stimDur</ci>
</apply>
</apply>
</apply>
</piece>
<otherwise>
<ci>stimHolding</ci>
</otherwise>
</piecewise>
</apply>
</math>
<!-- Global value-->
<variable name="q_L_B1" public_interface="out" units="fmol"/>
<variable name="q_R_B1" public_interface="out" units="fmol"/>
<variable name="q_Gs" public_interface="out" units="fmol"/>
<variable name="q_LR_B1" public_interface="out" units="fmol"/>
<variable name="q_R_B1Gs" public_interface="out" units="fmol"/>
<variable name="q_LR_B1Gs" public_interface="out" units="fmol"/>
<!-- From submodule-->
<variable name="q_L_B1_mLRGbinding_B1AR" public_interface="in" units="fmol"/>
<variable name="q_R_B1_mLRGbinding_B1AR" public_interface="in" units="fmol"/>
<variable name="q_Gs_mLRGbinding_B1AR" public_interface="in" units="fmol"/>
<variable name="q_LR_B1_mLRGbinding_B1AR" public_interface="in" units="fmol"/>
<variable name="q_R_B1Gs_mLRGbinding_B1AR" public_interface="in" units="fmol"/>
<variable name="q_LR_B1Gs_mLRGbinding_B1AR" public_interface="in" units="fmol"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>q_L_B1</ci>
<apply>
<plus/>
<ci>q_L_B1_mLRGbinding_B1AR</ci>
<ci>q_L_B1_init</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>q_R_B1</ci>
<apply>
<plus/>
<ci>q_R_B1_mLRGbinding_B1AR</ci>
<ci>q_R_B1_init</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>q_Gs</ci>
<apply>
<plus/>
<ci>q_Gs_mLRGbinding_B1AR</ci>
<ci>q_Gs_init</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>q_LR_B1</ci>
<apply>
<plus/>
<ci>q_LR_B1_mLRGbinding_B1AR</ci>
<ci>q_LR_B1_init</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>q_R_B1Gs</ci>
<apply>
<plus/>
<ci>q_R_B1Gs_mLRGbinding_B1AR</ci>
<ci>q_R_B1Gs_init</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>q_LR_B1Gs</ci>
<apply>
<plus/>
<ci>q_LR_B1Gs_mLRGbinding_B1AR</ci>
<ci>q_LR_B1Gs_init</ci>
</apply>
</apply>
</math>
</component>
<component name="LRGbinding_B1AR_parameters">
<variable initial_value="5573.84" name="kappa_R_C_B1" public_interface="out" units="fmol_per_sec"/>
<variable initial_value="641.71" name="kappa_R_R_B1" public_interface="out" units="fmol_per_sec"/>
<variable initial_value="1143.57" name="kappa_R_L_B1" public_interface="out" units="fmol_per_sec"/>
<variable initial_value="0.885956" name="K_L_B1" public_interface="out" units="per_fmol"/>
<variable initial_value="0.834078" name="K_R_B1" public_interface="out" units="per_fmol"/>
<variable initial_value="0.18177" name="K_Gs" public_interface="out" units="per_fmol"/>
<variable initial_value="7.24472" name="K_LR_B1" public_interface="out" units="per_fmol"/>
<variable initial_value="172.108" name="K_R_B1Gs" public_interface="out" units="per_fmol"/>
<variable initial_value="2.80863" name="K_LR_B1Gs" public_interface="out" units="per_fmol"/>
</component>
<component name="LRGbinding_B1AR">
<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_R_C_B1" public_interface="in" units="fmol_per_sec"/>
<variable name="kappa_R_R_B1" public_interface="in" units="fmol_per_sec"/>
<variable name="kappa_R_L_B1" public_interface="in" units="fmol_per_sec"/>
<variable name="K_L_B1" public_interface="in" units="per_fmol"/>
<variable name="K_R_B1" public_interface="in" units="per_fmol"/>
<variable name="K_Gs" public_interface="in" units="per_fmol"/>
<variable name="K_LR_B1" public_interface="in" units="per_fmol"/>
<variable name="K_R_B1Gs" public_interface="in" units="per_fmol"/>
<variable name="K_LR_B1Gs" public_interface="in" units="per_fmol"/>
<!-- Input from global environment-->
<variable name="q_L_B1_global" public_interface="in" units="fmol"/>
<variable name="q_R_B1_global" public_interface="in" units="fmol"/>
<variable name="q_Gs_global" public_interface="in" units="fmol"/>
<variable name="q_LR_B1_global" public_interface="in" units="fmol"/>
<variable name="q_R_B1Gs_global" public_interface="in" units="fmol"/>
<variable name="q_LR_B1Gs_global" public_interface="in" units="fmol"/>
<!-- Output to global environment-->
<variable initial_value="1e-16" name="q_L_B1" public_interface="out" units="fmol"/>
<variable initial_value="1e-16" name="q_R_B1" public_interface="out" units="fmol"/>
<variable initial_value="1e-16" name="q_Gs" public_interface="out" units="fmol"/>
<variable initial_value="1e-16" name="q_LR_B1" public_interface="out" units="fmol"/>
<variable initial_value="1e-16" name="q_R_B1Gs" public_interface="out" units="fmol"/>
<variable initial_value="1e-16" name="q_LR_B1Gs" public_interface="out" units="fmol"/>
<!-- Constitutive parameters-->
<variable name="mu_L_B1" units="J_per_mol"/>
<variable name="mu_R_B1" units="J_per_mol"/>
<variable name="mu_Gs" units="J_per_mol"/>
<variable name="mu_LR_B1" units="J_per_mol"/>
<variable name="mu_R_B1Gs" units="J_per_mol"/>
<variable name="mu_LR_B1Gs" units="J_per_mol"/>
<variable name="v_R_C_B1" units="fmol_per_sec"/>
<variable name="v_R_R_B1" units="fmol_per_sec"/>
<variable name="v_R_L_B1" units="fmol_per_sec"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>mu_L_B1</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_L_B1</ci>
<ci>q_L_B1_global</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>mu_R_B1</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_R_B1</ci>
<ci>q_R_B1_global</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>mu_Gs</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_Gs</ci>
<ci>q_Gs_global</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>mu_LR_B1</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_LR_B1</ci>
<ci>q_LR_B1_global</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>mu_R_B1Gs</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_R_B1Gs</ci>
<ci>q_R_B1Gs_global</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>mu_LR_B1Gs</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_LR_B1Gs</ci>
<ci>q_LR_B1Gs_global</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>v_R_C_B1</ci>
<apply>
<minus/>
<apply>
<times/>
<ci>kappa_R_C_B1</ci>
<apply>
<exp/>
<apply>
<divide/>
<apply>
<plus/>
<ci>mu_R_B1</ci>
<ci>mu_Gs</ci>
</apply>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<exp/>
<apply>
<divide/>
<ci>mu_R_B1Gs</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>v_R_R_B1</ci>
<apply>
<minus/>
<apply>
<times/>
<ci>kappa_R_R_B1</ci>
<apply>
<exp/>
<apply>
<divide/>
<apply>
<plus/>
<ci>mu_LR_B1</ci>
<ci>mu_Gs</ci>
</apply>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<exp/>
<apply>
<divide/>
<ci>mu_LR_B1Gs</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>v_R_L_B1</ci>
<apply>
<minus/>
<apply>
<times/>
<ci>kappa_R_L_B1</ci>
<apply>
<exp/>
<apply>
<divide/>
<apply>
<plus/>
<ci>mu_R_B1</ci>
<ci>mu_L_B1</ci>
</apply>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<exp/>
<apply>
<divide/>
<ci>mu_LR_B1</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>q_L_B1</ci>
</apply>
<apply>
<minus/>
<ci>v_R_L_B1</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>q_R_B1</ci>
</apply>
<apply>
<minus/>
<apply>
<minus/>
<ci>v_R_C_B1</ci>
</apply>
<ci>v_R_L_B1</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>q_Gs</ci>
</apply>
<apply>
<minus/>
<apply>
<minus/>
<ci>v_R_C_B1</ci>
</apply>
<ci>v_R_R_B1</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>q_LR_B1</ci>
</apply>
<apply>
<plus/>
<apply>
<minus/>
<ci>v_R_R_B1</ci>
</apply>
<ci>v_R_L_B1</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>q_R_B1Gs</ci>
</apply>
<ci>v_R_C_B1</ci>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>q_LR_B1Gs</ci>
</apply>
<ci>v_R_R_B1</ci>
</apply>
</math>
</component>
<connection>
<map_components component_1="environment" component_2="LRGbinding_B1AR"/>
<map_variables variable_1="time" variable_2="time"/>
<map_variables variable_1="q_L_B1_mLRGbinding_B1AR" variable_2="q_L_B1"/>
<map_variables variable_1="q_L_B1" variable_2="q_L_B1_global"/>
<map_variables variable_1="q_R_B1_mLRGbinding_B1AR" variable_2="q_R_B1"/>
<map_variables variable_1="q_R_B1" variable_2="q_R_B1_global"/>
<map_variables variable_1="q_Gs_mLRGbinding_B1AR" variable_2="q_Gs"/>
<map_variables variable_1="q_Gs" variable_2="q_Gs_global"/>
<map_variables variable_1="q_LR_B1_mLRGbinding_B1AR" variable_2="q_LR_B1"/>
<map_variables variable_1="q_LR_B1" variable_2="q_LR_B1_global"/>
<map_variables variable_1="q_R_B1Gs_mLRGbinding_B1AR" variable_2="q_R_B1Gs"/>
<map_variables variable_1="q_R_B1Gs" variable_2="q_R_B1Gs_global"/>
<map_variables variable_1="q_LR_B1Gs_mLRGbinding_B1AR" variable_2="q_LR_B1Gs"/>
<map_variables variable_1="q_LR_B1Gs" variable_2="q_LR_B1Gs_global"/>
</connection>
<connection>
<map_components component_1="LRGbinding_B1AR" component_2="LRGbinding_B1AR_parameters"/>
<map_variables variable_1="kappa_R_C_B1" variable_2="kappa_R_C_B1"/>
<map_variables variable_1="kappa_R_R_B1" variable_2="kappa_R_R_B1"/>
<map_variables variable_1="kappa_R_L_B1" variable_2="kappa_R_L_B1"/>
<map_variables variable_1="K_L_B1" variable_2="K_L_B1"/>
<map_variables variable_1="K_R_B1" variable_2="K_R_B1"/>
<map_variables variable_1="K_Gs" variable_2="K_Gs"/>
<map_variables variable_1="K_LR_B1" variable_2="K_LR_B1"/>
<map_variables variable_1="K_R_B1Gs" variable_2="K_R_B1Gs"/>
<map_variables variable_1="K_LR_B1Gs" variable_2="K_LR_B1Gs"/>
</connection>
<connection>
<map_components component_1="constants" component_2="LRGbinding_B1AR"/>
<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>
