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| Accession No. | Name | Source / Entry Date | Species / Tissue | Cell Compartment | Methodology / Model Implementation |
| 46 | enz_fb | Asthagiri AR and Lauffenburger DA. Biotechnol Prog. (2001) 17(2):227-39. ( peer-reviewed publication ). / 2003-02-22 00:00:00 | Chinese hamster (Cricetulus griseus); mammalian / Ovary - CHO cell line | Surface + cytosol | Qualitative / Approximate implementation |
| 44 | no_fb | Asthagiri AR and Lauffenburger DA. Biotechnol Prog. (2001) 17(2):227-39. ( peer-reviewed publication ). / 2003-02-22 00:00:00 | Chinese hamster (Cricetulus griseus); mammalian / Ovary - CHO cell line | Surface, cytosol | Quantitative match to experiments, Qualitative / Mathematically equivalent |
| 45 | adapt_fb | Asthagiri AR and Lauffenburger DA. Biotechnol Prog. (2001) 17(2):227-39. ( peer-reviewed publication ). / 2003-02-22 00:00:00 | Chinese hamster (Cricetulus griseus); mammalian / Ovary - CHO cell line | Surface, cytosol | Quantitative match to experiments, Qualitative / Mathematically equivalent |
| 13 | PLCbeta1 | In-house
/ 2001-11-12 00:00:00 | Bovine; Mammalian / Brain - Neuronal; expressed in E.coli | Cell Membrane | Qualitative / Exact GENESIS implementation |
| 25 | cAMP_pathway | Bhalla US Methods Enzymol. 2002;345:3-23). ( peer-reviewed publication ) / 2002-01-12 00:00:00 | Generic mammalian / Brain - Neuronal | Cell membrane + Cytosol | Quantitative match to experiments, Qualitative / Exact GENESIS implementation |
| 57 | Chemotaxis | Bray et al. Mol.Biol.Cell (1993) 4(5): 469-482. ( peer-reviewed publication ) / 2003-06-10 00:00:00 | E. Coli / - | Cell membrane + cytosol | Qualitative / Mathematically equivalent |
| 55 | Chemotaxis | Bray et al. Mol.Biol.Cell (1993) 4(5): 469-482. ( peer-reviewed publication ) / 2003-06-10 00:00:00 | E. Coli / - | Cell membrane + cytosol | Quantitative match to experiments / Mathematically equivalent |
| 52 | pathway | Quantification of Short Term Signaling by the EGFR Kholodenko et al, The J Biol Chem. , Vol 274, No. 42, Issue of October 15, pp. 30169 - 30181, 1999. ( peer-reviewed publication ) / 2003-05-17 00:00:00 | Harlan Sprague Dawley rat; mammalian / Hepatocytes | Cell membrane + cytosol | Qualitative / Mathematically equivalent |
| 26 | PKC_turnover | In-house
/ 2002-01-22 00:00:00 | Generic mammalian / Brain - Neuronal | Cell membrane +Cytosol | Quantitative match to experiments, Qualitative / Exact GENESIS implementation |
| 91 | 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, Cytosol | Quantitative match to experiments, Hypothetical / Exact GENESIS implementation |
| 96 | BCM | Bhalla PLoS Comput Biol 2021 (peer reviewed publication) / 2022-05-19 00:00:00 | General Mammalian / Neuronal | Cell membrane/cytosol | Qualitative / Reduced ODE model |
| 108 | bcm_bistable | Bhalla US. PLoS Comput Biol 2021 Nov 29;17(11):e1009621. / 2022-09-30 23:49:58 | Generic / | cytosol | Abstract phenomenological model / HillTau implementation |
| 43 | activation_ improved | Morris MC. et al. J Biol Chem. (2002) 277(26):23847-53. ( peer-reviewed publication ) / 2003-01-11 00:00:00 | Human, Xenopus / Expressed in E.coli | Cytosol | Quantitative match to experiments / Exact GENESIS implementation |
| 105 | kholodenko | Bhalla US.PLoS Comput Biol 2021 Nov 29;17(11):e1009621. / 2022-09-30 22:18:08 | Xenopus / Oocyte extract | cytosol | Fit to ODE model and experiments / HillTau implementation |
| 104 | fb_inhib | Bhalla US.PLoS Comput Biol 2021 Nov 29;17(11):e1009621. / 2022-09-30 22:16:21 | Generic / | cytosol | Abstract phenomenological model / HillTau implementation |
| 103 | gain | Bhalla US.PLoS Comput Biol 2021 Nov 29;17(11):e1009621. / 2022-09-30 22:14:44 | Generic / | cytosol | Fit to elementary ODE model / HillTau implementation |
| 101 | baseline | Bhalla US.PLoS Comput Biol 2021 Nov 29;17(11):e1009621. / 2022-09-30 22:10:56 | Generic / | cytosol | Fit to elementary ODE model / HillTau implementation |
| 102 | modifier | Bhalla US.PLoS Comput Biol 2021 Nov 29;17(11):e1009621. / 2022-09-30 22:13:03 | Generic / | cytosol | Fit to elementary ODE model / HillTau implementation |
| 106 | bistable | Bhalla US.PLoS Comput Biol 2021 Nov 29;17(11):e1009621. / 2022-09-30 22:20:03 | Generic / | cytosol | Abstract phenomenological model / HillTau implementation |
| 68 | Repressilator | Elowitz 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 | Cytosol | Qualitative / Exact GENESIS implementation |
| 71 | RasGTPase | Phillips 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 | Cytosol | Qualitative / Exact GENESIS implementation |
| 72 | L-Arginine | Abu-Soud HM et al. Biochemistry. 1999 Sep 21;38(38):12446-51. ( Peer-reviewed publication ) / 2006-08-07 00:00:00 | Human / Kidney cell expressing the rat brain nNOS | Cytosol | Quantitative match to experiments / Exact GENESIS implementation |
| 73 | HomoArginine | Abu-Soud HM et al. Biochemistry. 1999 Sep 21;38(38):12446-51. ( Peer-reviewed publication ) / 2006-08-07 00:00:00 | human / Kidney cell expressing the rat brain nNOS | Cytosol | Quantitative match to experiments / Exact GENESIS implementation |
| 74 | NMArginine | Abu-Soud HM et al. Biochemistry. 1999 Sep 21;38(38):12446-51. ( Peer-reviewed publication ) / 2006-08-07 00:00:00 | human / Kidney cell expressing the rat brain nNOS | Cytosol | Quantitative match to experiments / Exact GENESIS implementation |
| 75 | NOHArginine | Abu-Soud HM et al. Biochemistry. 1999 Sep 21;38(38):12446-51. ( Peer-reviewed publication ) / 2006-08-07 00:00:00 | human / Kidney cell expressing the rat brain nNOS | Cytosol | Quantitative match to experiments / Exact GENESIS implementation |
| 97 | exc | Bhalla US.PLoS Comput Biol 2021 Nov 29;17(11):e1009621. / 2022-09-30 15:13:55 | Generic / | cytosol | Fit to elementary ODE model / HillTau implementation |
| 98 | exc2ndOrder | Bhalla US.PLoS Comput Biol 2021 Nov 29;17(11):e1009621. / 2022-09-30 17:52:22 | Generic / | cytosol | Fit to elementary ODE model / HillTau implementation |
| 99 | conv | Bhalla US.PLoS Comput Biol 2021 Nov 29;17(11):e1009621. / 2022-09-30 17:54:52 | Generic / | cytosol | Fit to elementary ODE model / HillTau implementation |
| 100 | inh | Bhalla US.PLoS Comput Biol 2021 Nov 29;17(11):e1009621. / 2022-09-30 22:08:48 | Generic / | cytosol | Fit to elementary ODE model / HillTau implementation |
| 42 | activation_ pathway | Morris MC. et al. J Biol Chem. (2002) 277(26):23847-53. ( peer-reviewed publication ) / 2003-01-11 00:00:00 | Human, Xenopus / Expressed in E.coli | Cytosol | Qualitative / Exact GENESIS implementation |
| 12 | Stuehr_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 | Cytosol | Quantitative match to experiments / Approximate implementation |
| 15 | Marletta | Stone JR, Marletta MA. Biochemistry (1996) 35(4):1093-9. ( peer-reviewed publication ) / 2001-12-12 00:00:00 | Bovine / Lungs | Cytosol | Quantitative match to experiments / Mathematically equivalent |
| 112 | conv2ndOrder | Bhalla US. PLoS Comput Biol 2021 Nov 29;17(11):e1009621. / 2022-10-01 00:07:32 | Generic / | cytosol | Fit to elementary ODE model / HillTau implementation |
| 111 | osc | Bhalla US. PLoS Comput Biol 2021 Nov 29;17(11):e1009621. / 2022-10-01 00:05:03 | Generic / | cytosol | Abstract phenomenological model / HillTau implementation |
| 19 | CondorelliGC | Condorelli P, George SC. Biophys J. (2001) 80(5):2110-9). ( peer-reviewed publication / 2001-12-25 00:00:00 | Generic mammalian / Pulmonary and vascular smooth muscle | Cytosol | Quantitative match to experiments / Mathematically equivalent |
| 20 | regulation | In-house / 2001-12-25 00:00:00 | rat; Mammalian / Brain - Neuronal; expressed in E.coli | Cytosol | Quantitative match to experiments, Qualitative / Exact GENESIS implementation |
| 23 | IP3metabolism | Mishra J, Bhalla US. Biophys J. 2002 Sep;83(3):1298-316. ( peer-reviewed publication ) / 2002-01-07 00:00:00 | Generic mammalian / Brain - Neuronal | Cytosol | Quantitative match to experiments, Qualitative / Approximate implementation |
| 24 | IP3metabolism | Mishra J, Bhalla US. Biophys J. 2002 Sep;83(3):1298-316. ( peer-reviewed publication ) / 2002-01-08 00:00:00 | Generic mammalian / Brain - Neuronal | Cytosol | Quantitative match to experiments, Qualitative / Approximate implementation |
| 27 | MAPK_osc | Boris N. Kholodenko Eur J Biochem. (2000) 267(6):1583-8). ( peer-reviewed publication ) / 2002-01-22 00:00:00 | Xenopus / Oocyte extract | Cytosol | Hypothetical / Mathematically equivalent |
| 28 | of_GC | In-house / 2002-01-22 00:00:00 | Bovine / Lungs | Cytosol | Quantitative match to experiments, Qualitative / Exact GENESIS implementation |