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CellDesigner Simulation

Curated BioModel Database (checked 2008/07/25)

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DONE OK. choice-no NG. YES including "events" in the KineticLaws.

BIOMODEL ID BioModel name EVENTS SOSlib COPASI Exception Comments
RAW LOG RAW LOG
BIOMD0000000001 Edelstein1996_EPSP_AChEvent YES choice-no choice-no DONE choice-no Simulation Failed: The SBML_odeSolver implementation of events is not fully SBML conformant.  
BIOMD0000000002 Edelstein1996_EPSP_AChSpecies NO DONE choice-no DONE choice-no   *2
BIOMD0000000003 Goldbeter1991_MinMitOscil NO DONE DONE DONE DONE   *1
BIOMD0000000004 Goldbeter1991_MinMitOscil_ExplInact NO DONE DONE DONE DONE   *1
BIOMD0000000005 Tyson1991_CellCycle_6var NO DONE choice-no DONE choice-no   *2
BIOMD0000000006 Tyson1991_CellCycle_2var NO DONE choice-no DONE choice-no   *2
BIOMD0000000007 Novak1997_CellCycle YES DONE choice-no DONE choice-no initial Quantity value (initialAmount or initialConcertration) is undefined in the following Species: *1
BIOMD0000000008 Gardner1998_CellCycle_Goldbeter NO DONE choice-no DONE choice-no   *1 *2
BIOMD0000000009 Huang1996_MAPK_ultrasens NO DONE choice-no DONE choice-no   *2
BIOMD0000000010 Kholodenko2000_MAPK_feedback NO DONE DONE DONE DONE    
BIOMD0000000011 Levchenko2000_MAPK_noScaffold NO DONE choice-no DONE choice-no   *2
BIOMD0000000012 Elowitz2000_Repressilator NO DONE choice-no DONE choice-no   *2
BIOMD0000000013 Poolman2004_CalvinCycle NO DONE DONE DONE DONE    
BIOMD0000000014 Levchenko2000_MAPK_Scaffold NO DONE choice-no DONE choice-no   *2
BIOMD0000000015 Curto1998_purineMetabol NO DONE DONE DONE DONE    
BIOMD0000000016 Goldbeter1995_CircClock NO DONE choice-no DONE choice-no   *2
BIOMD0000000017 Hoefnagel2002_PyruvateBranches NO DONE choice-no DONE choice-no   *2
BIOMD0000000018 Morrison1989_FolateCycle NO DONE choice-no DONE choice-no   *2
BIOMD0000000020 hodgkin-huxley squid-axon 1952 NO - - - - There is no Species.  
BIOMD0000000021 Leloup1999_CircClock NO DONE choice-no DONE choice-no   *1 *2
BIOMD0000000022 Ueda2001_CircClock NO DONE choice-no DONE choice-no   *2
BIOMD0000000023 Rohwer2001_Sucrose NO DONE choice-no DONE choice-no   *2
BIOMD0000000024 Scheper1999_CircClock NO choice-no choice-no choice-no choice-no *3  
BIOMD0000000025 Smolen2002_CircClock YES choice-no choice-no choice-no choice-no *3  
BIOMD0000000026 Markevich2004_MAPK_orderedElementary NO DONE choice-no DONE choice-no   *2
BIOMD0000000027 Markevich2004_MAPK_orderedMM NO DONE choice-no DONE choice-no   *2
BIOMD0000000028 Markevich2004_MAPK_phosphoRandomElementary NO DONE choice-no DONE choice-no   *2
BIOMD0000000029 Markevich2004_MAPK_phosphoRandomMM NO DONE choice-no DONE choice-no   *2
BIOMD0000000030 Markevich2005_MAPK_AllRandomElementary NO DONE choice-no DONE choice-no   *2
BIOMD0000000031 Markevich2004_MAPK_orderedMM2kinases NO DONE choice-no DONE choice-no   *2
BIOMD0000000032 Kofahl2004_pheromone NO DONE choice-no DONE choice-no   *2
BIOMD0000000033 Brown2004_NGF_EGF_signaling NO DONE choice-no DONE choice-no   *2
BIOMD0000000034 Smolen2004_CircClock NO choice-no choice-no choice-no choice-no *3 *1
BIOMD0000000035 Vilar2002_Oscillator NO DONE choice-no DONE choice-no   *2
BIOMD0000000036 Tyson1999_CircClock NO DONE choice-no DONE choice-no   *2
BIOMD0000000037 Marwan_Genetics_2003 NO DONE choice-no DONE choice-no   *2
BIOMD0000000038 Rohwer2000_Phosphotransferase_System NO DONE choice-no DONE choice-no   *2
BIOMD0000000039 Marhl2000_CaOscillations NO DONE DONE DONE DONE    
BIOMD0000000040 Field1974_Oregonator NO choice-no choice-no DONE choice-no Simulation failed: Integration not successful.  
BIOMD0000000041 Kongas2001_creatine NO DONE choice-no DONE choice-no   *2
BIOMD0000000042 Nielsen1998_Glycolysis NO DONE choice-no DONE choice-no   *2
BIOMD0000000043 Borghans1997_CaOscillation_model1 NO DONE choice-no DONE choice-no   *2
BIOMD0000000044 Borghans1997_CaOscillation_model2 NO DONE choice-no DONE choice-no   *2
BIOMD0000000045 Borghans1997_CaOscillation_model3 NO DONE choice-no DONE choice-no   *2
BIOMD0000000046 Olsen2003_peroxidase NO DONE choice-no DONE choice-no   *2
BIOMD0000000047 Oxhamre2005_Ca_oscillation NO DONE choice-no DONE choice-no   *1 *2
BIOMD0000000048 Kholodenko1999_EGFRsignaling NO DONE choice-no DONE choice-no   *2
BIOMD0000000049 Sasagawa2005_MAPK NO DONE choice-no DONE choice-no   *2
BIOMD0000000050 Martins2003_AmadoriDegradation NO DONE choice-no DONE choice-no   *2
BIOMD0000000051 Chassagnole2002_Carbon_Metabolism NO choice-no choice-no DONE DONE *3 *1
BIOMD0000000052 Brands2002_MonosaccharideCasein NO DONE choice-no DONE choice-no   *2
BIOMD0000000053 Ferreira2003_CML_generation2 NO DONE choice-no DONE choice-no   *2
BIOMD0000000054 Ataullahkhanov1996_Adenylate NO choice-no choice-no choice-no choice-no Error: no message.  
BIOMD0000000055 Locke2005_CircClock NO choice-no choice-no choice-no choice-no Simulation Control Panel cannot be launched. There are following errors.  
BIOMD0000000056 Chen2004_CellCycle YES choice-no choice-no DONE DONE initial Quantity value (initialAmount or initialConcertration) is undefined in the following Species: *1
BIOMD0000000057 Sneyd2002_IP3_Receptor NO DONE choice-no DONE choice-no   *1 *2
BIOMD0000000058 Bindschadler2001_coupled_Ca_oscillators NO DONE DONE DONE DONE   *1
BIOMD0000000059 Fridlyand2003_Calcium_flux NO DONE DONE DONE DONE   *1
BIOMD0000000060 Keizer1996_Ryanodine_receptor_adaptation NO DONE choice-no DONE choice-no   *1 *2
BIOMD0000000061 Hynne2001 Glycolysis NO DONE choice-no DONE choice-no   *2
BIOMD0000000062 bhartiya2003 tryptophan operon NO DONE choice-no DONE choice-no   *2
BIOMD0000000063 Galazzo1990_pathway_kinetics NO DONE choice-no DONE choice-no   *2
BIOMD0000000064 Teusink2000_Glycolysis NO choice-no DONE choice-no DONE initial Quantity value (initialAmount or initialConcertration) is undefined in the following Species: *1
BIOMD0000000065 Yildirim2003_Lac_Operon NO DONE choice-no DONE choice-no   *2
BIOMD0000000066 Chassagnole2001_Threonine Synthesis NO DONE choice-no DONE choice-no   *2
BIOMD0000000067 Fung2005_Metabolic_Oscillator NO DONE choice-no DONE choice-no   *2
BIOMD0000000068 Curien2003_MetThr_synthesis NO DONE choice-no DONE choice-no   *2
BIOMD0000000069 Fuss2006_MitoticActivation NO DONE choice-no DONE choice-no   *1 *2
BIOMD0000000070 Holzhutter2004_Erythrocyte_Metabolism NO DONE choice-no DONE choice-no   *2
BIOMD0000000071 Bakker2001_Glycolysis NO DONE choice-no DONE choice-no   *2
BIOMD0000000072 Yi2003_GproteinCycle NO DONE choice-no DONE choice-no   *2
BIOMD0000000073 Leloup2003_CircClock_DD NO DONE choice-no DONE choice-no   *2
BIOMD0000000074 Leloup2003_CircClock_DD_REV-ERBalpha NO DONE choice-no DONE choice-no   *2
BIOMD0000000075 Xu2003_Phosphoinositide_turnover YES choice-no choice-no DONE choice-no *3 *1
BIOMD0000000076 Cronwright2002_Glycerol_Synthesis NO DONE choice-no DONE choice-no   *2
BIOMD0000000077 Blum2000_LHsecretion_1 YES DONE choice-no DONE choice-no   *2
BIOMD0000000078 Leloup2003_CircClock_LD NO choice-no choice-no DONE choice-no *3 *1
BIOMD0000000079 Goldbeter2006_weightCycling NO DONE DONE DONE DONE    
BIOMD0000000080 Thomsen1989_AdenylateCyclase NO DONE choice-no DONE choice-no   *2
BIOMD0000000081 Suh2004_KCNQ_Regulation YES choice-no choice-no DONE choice-no *3 *1
BIOMD0000000082 Thomsen1988_AdenylateCyclase_Inhibition NO DONE choice-no DONE choice-no   *2
BIOMD0000000083 Leloup2003_CircClock_LD_REV-ERBalpha NO choice-no choice-no DONE choice-no *3 *1
BIOMD0000000084 Hornberg2005_ERKcascade NO DONE choice-no DONE choice-no   *2
BIOMD0000000085 Maurya2005_GTPaseCycle_reducedOrder NO DONE choice-no DONE choice-no   *1 *2
BIOMD0000000086 Bornheimer2004_GTPaseCycle NO DONE choice-no DONE choice-no   *1 *2
BIOMD0000000087 Proctor2006_telomere YES DONE choice-no DONE choice-no   *2
BIOMD0000000088 Maeda2006_MyosinPhosphorylation YES DONE choice-no DONE choice-no   *2
BIOMD0000000089 Locke2006_CircClock_LL NO DONE DONE DONE DONE    
BIOMD0000000090 Wolf2001 respiratory oscillations NO DONE choice-no DONE choice-no   *2
BIOMD0000000091 Hsp90model_basis510 NO DONE choice-no DONE choice-no   *2
BIOMD0000000092 Fuentes2005_ZymogenActivation NO DONE choice-no DONE choice-no   *2
BIOMD0000000093 Yamada2003_JAK_STAT_pathway NO DONE choice-no DONE choice-no   *2
BIOMD0000000094 Yamada2003_JAK_STAT_SOCS1_knockout NO DONE choice-no DONE choice-no   *2
BIOMD0000000095 Zeilinger2006_PRR7-PRR9-Y YES DONE choice-no DONE choice-no   *2
BIOMD0000000096 Zeilinger2006_PRR7-PRR9light-Y YES choice-no choice-no DONE choice-no Simulation Failed: The SBML_odeSolver implementation of events is not fully SBML conformant.  
BIOMD0000000097 Zeilinger2006_PRR7-PRR9light-Yprime YES choice-no choice-no DONE choice-no Simulation Failed: The SBML_odeSolver implementation of events is not fully SBML conformant.  
BIOMD0000000098 Goldbeter1990_Ca_Oscillations NO DONE DONE DONE DONE    
BIOMD0000000099 Laub1998_SpontaneousOscillations NO DONE choice-no DONE choice-no   *2
BIOMD0000000100 Rozi2003_GlycogenPhosphorylase_Activation NO DONE choice-no DONE choice-no   *2
BIOMD0000000101 Vilar2006_TGFbeta YES DONE choice-no DONE choice-no   *2
BIOMD0000000102 Legewie2006_apoptosis_WT NO DONE choice-no DONE choice-no   *2
BIOMD0000000103 Legewie2006_apoptosis_NC NO DONE choice-no DONE choice-no   *2
BIOMD0000000104 Klipp2002_MetabolicOptimization_linearPathway(n=2) YES DONE choice-no DONE choice-no Simulation Failed: The SBML_odeSolver implementation of events is not fully SBML conformant.  
BIOMD0000000105 Proctor2007_ubiquitine NO DONE choice-no DONE choice-no   *2
BIOMD0000000106 Yang2007_ArachidonicAcid NO DONE choice-no DONE choice-no   *2
BIOMD0000000107 Novak1993_M_phase_control NO DONE choice-no DONE choice-no   *1 *2
BIOMD0000000108 Kowald2006_SOD NO DONE choice-no DONE choice-no   *1 *2
BIOMD0000000109 Haberichter2007_cellcycle YES DONE choice-no DONE choice-no initial Quantity value (initialAmount or initialConcertration) is undefined in the following Species:  
BIOMD0000000110 Qu2003_CellCycle NO DONE choice-no DONE choice-no   *2
BIOMD0000000111 Novak2001_FissionYeast_CellCycle YES choice-no choice-no DONE choice-no Simulation Failed: The SBML_odeSolver implementation of events is not fully SBML conformant. *1
BIOMD0000000112 Clarke2006_Smad_signalling NO DONE choice-no DONE choice-no   *1 *2
BIOMD0000000113 Dupont1992_Ca_dpt_protein_phospho NO DONE choice-no DONE choice-no initial Quantity value (initialAmount or initialConcertration) is undefined in the following Species: *1
BIOMD0000000114 Somogyi1990_CaOscillations NO DONE DONE DONE DONE   *1
BIOMD0000000115 Somogyi1990_CaOscillations_SingleCaSpike NO DONE DONE DONE DONE   *1
BIOMD0000000116 McClean2007?_CrossTalk NO DONE DONE DONE DONE    
BIOMD0000000117 Dupont1991_CaOscillation YES DONE DONE DONE DONE   *1
BIOMD0000000118 Golomb2006_SomaticBursting YES - - - - There is no Species.  
BIOMD0000000119 Golomb2006_SomaticBursting_nonzero[Ca] NO DONE DONE DONE DONE   *1
BIOMD0000000120 Chan2004_TCell_receptor_activation YES choice-no choice-no DONE choice-no Simulation Failed: The SBML_odeSolver implementation of events is not fully SBML conformant.  
BIOMD0000000121 Clancy2001_Kchannel YES choice-no choice-no DONE choice-no Simulation failed. *1
BIOMD0000000122 Fisher2006_Ca_Oscillation_dpdnt_NFAT_dynamics YES DONE DONE DONE DONE    
BIOMD0000000123 Fisher2006_NFAT_Activation NO DONE DONE DONE DONE    
BIOMD0000000124 Wu2006_K+Channel YES DONE DONE DONE DONE   *1
BIOMD0000000125 Komarova2005_TheoreticalFramework_BasicArchitecture YES DONE choice-no DONE choice-no   *2
BIOMD0000000126 Clancy2002_CardiacSodiumChannel_WT YES choice-no choice-no DONE choice-no Simulation failed. *1
BIOMD0000000127 Izhikevich2003_SpikingNeuron YES - - - - There is no Species.  
BIOMD0000000128 Bertram2006_Endothelin YES DONE DONE DONE DONE   *1
BIOMD0000000129 Izhikevich2004_SpikingNeurons_inhibitionInducedSpiking YES - - - - There is no Species.  
BIOMD0000000130 Izhikevich2004_SpikingNeurons_integrator YES - - - - There is no Species.  
BIOMD0000000131 Izhikevich2004_SpikingNeurons_reboundBurst YES - - - - There is no Species.  
BIOMD0000000132 Izhikevich2004_SpikingNeurons_reboundSpike YES - - - - There is no Species.  
BIOMD0000000133 Izhikevich2004_SpikingNeurons_resonator YES - - - - There is no Species.  
BIOMD0000000134 Izhikevich2004_SpikingNeurons_SpikeLatency YES - - - - There is no Species.  
BIOMD0000000135 Izhikevich2004_SpikingNeurons_subthresholdOscillations YES - - - - There is no Species.  
BIOMD0000000136 Izhikevich2004_SpikingNeurons_thresholdVariability YES - - - - There is no Species.  
BIOMD0000000137 Sedaghat2002_InsulinSignalling_noFeedback YES choice-no choice-no DONE choice-no Simulation Failed: The SBML_odeSolver implementation of events is not fully SBML conformant.  
BIOMD0000000138 Tabak2007_dopamine NO DONE DONE DONE DONE   *1
BIOMD0000000139 Hoffmann2002_KnockOut_IkBNFkB_Signaling YES choice-no choice-no DONE choice-no *3 *1
BIOMD0000000140 Hoffmann2002_WT_IkBNFkB_Signaling YES choice-no choice-no DONE choice-no *3 *1
BIOMD0000000141 Izhikevich2004_SpikingNeurons_Class1Excitable YES - - - - There is no Species.  
BIOMD0000000142 Izhikevich2004_SpikingNeurons_Class2Excitable YES - - - - There is no Species.  
BIOMD0000000143 Olsen2003_neutrophil_oscillatory_metabolism NO DONE choice-no DONE choice-no   *2
BIOMD0000000144 Calzone2007_CellCycle YES DONE choice-no DONE choice-no   *1 *2
BIOMD0000000145 Wang2007_ATP_induced_Ca_Oscillation NO DONE DONE DONE DONE   *1
BIOMD0000000146 Hatakeyama2003_MAPK NO DONE choice-no DONE choice-no   *1 *2
BIOMD0000000147 ODea2007_IkappaB NO DONE choice-no DONE choice-no   *1 *2
BIOMD0000000148 Komarova2003_BoneRemodeling YES DONE choice-no DONE choice-no   *1 *2
BIOMD0000000149 Kim2007_Wnt_ERK_Crosstalk YES DONE choice-no DONE choice-no   *1 *2
BIOMD0000000150 Morris2002_CellCycle_CDK2Cyclin NO DONE choice-no DONE choice-no   *2
BIOMD0000000151 Singh2006_IL6_Signal_Transduction NO DONE choice-no DONE choice-no   *2
BIOMD0000000152 Komarova2003_BoneRemodeling YES DONE choice-no DONE choice-no   *2
BIOMD0000000153 Kim2007_Wnt_ERK_Crosstalk YES DONE choice-no DONE choice-no   *2
BIOMD0000000154 Komarova2003_BoneRemodeling YES choice-no choice-no choice-no choice-no *3  
BIOMD0000000155 Kim2007_Wnt_ERK_Crosstalk YES choice-no choice-no choice-no choice-no *3 *1
BIOMD0000000156 Komarova2003_BoneRemodeling YES DONE DONE DONE DONE    
BIOMD0000000157 Kim2007_Wnt_ERK_Crosstalk YES DONE choice-no DONE choice-no   *2
BIOMD0000000158 Komarova2003_BoneRemodeling YES choice-no choice-no choice-no choice-no Simulation Failed: The SBML_odeSolver implementation of events is not fully SBML conformant. *1
BIOMD0000000159 Kim2007_Wnt_ERK_Crosstalk YES DONE choice-no DONE choice-no   *2
BIOMD0000000160 Komarova2003_BoneRemodeling YES DONE DONE DONE DONE    
BIOMD0000000161 Kim2007_Wnt_ERK_Crosstalk YES choice-no choice-no DONE choice-no *3 *1
BIOMD0000000162 Komarova2003_BoneRemodeling YES choice-no choice-no DONE DONE *3  
BIOMD0000000163 Kim2007_Wnt_ERK_Crosstalk YES DONE choice-no DONE choice-no   *1 *2
BIOMD0000000164 Komarova2003_BoneRemodeling YES choice-no choice-no DONE choice-no *3 *1
BIOMD0000000165 Kim2007_Wnt_ERK_Crosstalk YES choice-no choice-no choice-no choice-no *3 *1
BIOMD0000000166 Komarova2003_BoneRemodeling YES DONE choice-no DONE choice-no   *1 *2
BIOMD0000000167 Kim2007_Wnt_ERK_Crosstalk YES choice-no choice-no DONE choice-no initial Quantity value (initialAmount or initialConcertration) is undefined in the following Species:  
BIOMD0000000168 Komarova2003_BoneRemodeling YES DONE DONE DONE DONE initial Quantity value (initialAmount or initialConcertration) is undefined in the following Species: *1
BIOMD0000000169 Kim2007_Wnt_ERK_Crosstalk YES choice-no choice-no DONE choice-no *3  
BIOMD0000000170 Komarova2003_BoneRemodeling YES DONE choice-no DONE choice-no   *1 *2
BIOMD0000000171 Kim2007_Wnt_ERK_Crosstalk YES DONE DONE DONE DONE initial Quantity value (initialAmount or initialConcertration) is undefined in the following Species: *1
BIOMD0000000172 Komarova2003_BoneRemodeling YES DONE choice-no DONE choice-no   *2
BIOMD0000000173 Kim2007_Wnt_ERK_Crosstalk YES DONE choice-no DONE choice-no  
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