{"database":"biostudies-other","file_versions":[],"scores":null,"additional":{"omics_type":["Unknown"],"volume":["10"],"submitter":["Norma Citlalcue Perez-Rosas"],"journal":["PloS one"],"pagination":["e0138195"],"species":["Cavia porcellus"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/MODEL1406180001"],"repository":["biostudies-other"],"additional_accession":["26390403"],"pubmed_authors":["administrator","Norma Citlalcue Perez-Rosas"]},"is_claimable":false,"name":"Rosas2015 - Caffeine-induced luminal SR calcium changes","description":"

This SBML model reproduced the calcium release from SR by application of 20 mM or 2mM caffeine, described in the paper. * Ca_i_Total and Ca_SR_Total respectively represent the total calcium concentration in the sarcoplasm and in the sarcoplasmic reticulum. * Ca_i  and Ca_SR respectively represent the free calcium concentration in the sarcoplasm and  the sarcoplasmic reticulum.* J1 is the calcium  flux due to all mechanisms (except SERCA pumps) that remove the excess of calcium from the sarcoplasm.* J2 is the calcium flux from the reticulum to the sarcoplasm via the ryanodine receptors (RyR) present in the reticulum membrane.* J3 is the calcium flux from the sarcoplasm to the reticulum by the SERCA pumps located in the reticulum membrane.*The parameters are a,  b, B c, Ca_i_basal, Ca_SR_basal, caff, csq,  gamma, KC, kf, KR, Ks, nf, ns and nv.* The value of KC for the model were calculated for J2=J3, after substituting Ca_i=Ca_i_basal, Ca_SR=Ca_SR_basal and caff=0. * Po represents the RyR open probability based on CICR. * Caffeine (caff)** increases the calcium affinity of smooth muscle's RyR so they open even when calcium is at basal level.** Due to caffeine-induced calcium release, a 5 seconds  pulse of caffeine (20 mM) was applied (event called Caff_ON) at 10 seconds after the simulation starts. The event called Caff_OFF starts when the pulse of caffeine finished (caff=0).* PE denotes the concentration of calcium binding sites. * Xi=Ca_SR_Total+PE+KR*In order to reproduce the dynamics of calcium following the application of 2 mM of caffeine, the value of some parameters needs to be change: b=35, Ca_i_basal=9.257e-6, gamma=7.45, caff=0.002 and the initial condition for Ca_i_Total=9.257e-6.*The unit of the calcium concentration is mol/L.* The unit of time is second. *The original SBML code was exported from COPASI 4.12 (Build 81).

","dates":{"release":"2014-06-18T00:00:00Z","modification":"2025-07-15T09:59:11.604Z","creation":"2025-03-29T18:10:19.923Z"},"accession":"MODEL1406180001","cross_references":{"biomodels___db":["BIOMD0000000601"],"pubmed":["26390403"],"chebi":["CHEBI:29108","CHEBI:27732"],"go":["GO:0014808","GO:0016529","GO:0005737","GO:0070296","GO:0006816","GO:0060316","GO:0051481"],"taxonomy":["10141"],"bto":["BTO:0001849"]}}