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Accession
No.		NameSource /
Entry Date		Species /
Tissue		Cell CompartmentMethodology /
Model Implementation
48PKC_2003Bhalla US. (2004) Biophys J. 87(2):733-44 .( peer-reviewed publication ) /
 2003-04-28 00:00:00		Generic mammalian /
Generic		Cytosol + Cell membraneQualitative /
Exact GENESIS implementation
26PKC_turnoverIn-house  /
 2002-01-22 00:00:00		Generic mammalian /
Brain - Neuronal		Cell membrane +CytosolQuantitative match to experiments, Qualitative /
Exact GENESIS implementation
13PLCbeta1In-house  /
 2001-11-12 00:00:00		Bovine; Mammalian /
Brain - Neuronal; expressed in E.coli		Cell MembraneQualitative /
Exact GENESIS implementation
91
  • Protein_
    synthesis
    		• Jain P, and Bhalla, U.S. PLoS Comput Biol. 2009 Feb;5(2). ( Peer-reviewed publication ) /
     2009-02-12 00:00:00    		General Mammalian /
    -    		Cell membrane, CytosolQuantitative match to experiments, Hypothetical /
    Exact GENESIS implementation
    69
  • Quorum_
    repressilator
    		•  Garcia-Ojalvo J, Elowitz MB, Strogatz SH. Proc Natl Acad Sci U S A. 2004 Jul 27;101(30):10955-60.. ( Peer-reviewed publication ) /
     2006-02-14 00:00:00    		E. Coli /
    E.coli Expression, Transposon Tn10, Lambda phage Expression    		Cytosol, ExtracellularQualitative /
    Exact GENESIS implementation
    70RanGTPaseGorlich D et al EMBO J. 2003 Mar 3;22(5):1088-100. ( Peer-reviewed publication ) /
     2006-05-12 00:00:00    		Eukaryotic system /
    HeLa Cells    		Cytosol, NucleusQualitative /
    Exact GENESIS implementation
    71RasGTPasePhillips RA et al Biochemistry. 2003 Apr 8;42(13):3956-65. ( Peer-reviewed publication ) /
     2006-05-12 00:00:00    		General Mammalian /
    E.coli Expression system    		CytosolQualitative /
    Exact GENESIS implementation
    68RepressilatorElowitz MB, Leibler S., Nature. 2000 Jan 20;403(6767):335-8. ( Peer-reviewed publication ) /
     2006-02-13 00:00:00    		E. Coli /
    E.coli Expression, Transposon, Lambda phage    		CytosolQualitative /
    Exact GENESIS implementation
    88S6KJain P, and Bhalla, U.S. PLoS Comput Biol. 2009 Feb;5(2). ( Peer-reviewed publication ) /
     2009-02-12 00:00:00    		General Mammalian /
    HEK293 cells    		Surface, CytosolQualitative /
    Exact GENESIS implementation
    37SERCA Mahaney JE. et al. Biophys J. (2000) 78(3) 1306-23. ( peer-reviewed publication ) /
     2002-12-31 00:00:00    		Canine /
    Cardiac; expressed in Baculovirus infected Sf21(Spodoptera frugiperda) insect cells.    		MicrosomesQuantitative match to experiments, Qualitative /
    Exact GENESIS implementation
    15
  • sGC_Stone_
    Marletta
    		• Stone JR, Marletta MA. Biochemistry (1996) 35(4):1093-9. ( peer-reviewed publication ) /
     2001-12-12 00:00:00    		Bovine /
    Lungs    		CytosolQuantitative match to experiments /
    Mathematically equivalent
    61
  • simple_AMPAR_
    traff_model2
    		• Hayer A, Bhalla US PLoS Comput Biol. 2005 Jul;1(2):137-54. Epub 2005 Jul 29. ( Peer-reviewed publication ) /
     2005-07-19 00:00:00    		General Mammalian /
    Neuronal    		Postsynaptic Density, Synaptic SpineIllustrative /
    Exact GENESIS implementation
    67SOCS1_knockoutYamada S et al. FEBS Letters 2003 Jan 16;534(1-3):190-6. ( Peer-reviewed publication ) /
     2006-02-13 00:00:00    		mouse /
    Liver    		Nucleus , cytoplasmQuantitative match to experiments /
    Exact GENESIS implementation
    12Stuehr_NOS Santolini J. et al. J Biol Chem. (2001) 276(2):1233-43. ( peer-reviewed publication ) /
     2001-11-12 00:00:00    		Generic mammalian /
    Neuronal ; Expressioned in E.coli    		CytosolQuantitative match to experiments /
    Approximate implementation
    16
  • Synaptic_
    Network
    		• Bhalla US and Iyengar R. Science (1999) 283(5400):381-7. ( peer-reviewed publication ) /
     2001-12-12 00:00:00    		Generic mammalian /
    Neuronal    		SynapseQuantitative match to experiments, Qualitative /
    Exact GENESIS implementation
    114syn_CaMKIIIBhalla US. PLoS Comput Biol 2021 Nov 29;17(11):e1009621.  /
     2022-10-01 00:12:23    		Rodent /
    Brain    		SynapseQuantitative fit to experiments /
    HillTau implementation
    109
  • syn_prot_
    composite
    		• Bhalla US. PLoS Comput Biol 2021 Nov 29;17(11):e1009621.  /
     2022-09-30 23:58:38    		Rodent /
    Brain    		SynapseQuantitative fit to experiments /
    HillTau implementation
    113
  • syn_prot_
    minimal
    		• Bhalla US. PLoS Comput Biol 2021 Nov 29;17(11):e1009621.  /
     2022-10-01 00:09:57    		Rodent /
    Brain    		SynapseReduced quantitative fit to experiments /
    HillTau implementation